[ { "id": "P32770-1.345.345", "start_pos": 345, "end_pos": 345, "uniprot_canonical_ac": "P32770-1", "length": 719, "uniprot_id": "DRI1_YEAST", "protein_name": "Putative RNA-binding protein involved in heterochromatin assembly", "refseq_ac": "NP_010114", "refseq_name": "Nrp1p", "gene_name": "NRP1", "gene_names_uniprotkb": "NRP1; ARP1; ARP", "gene_names_refseq": "NRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32770", "url": "https://www.uniprot.org/uniprotkb/P32770" } ], "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": "P32770", "url": "https://www.uniprot.org/uniprotkb/P32770" }, { "database": "iPTMnet", "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "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": "P32770", "url": "https://www.uniprot.org/uniprotkb/P32770" }, { "database": "iPTMnet", "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "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": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "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": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "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": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P32770", "url": "https://www.uniprot.org/uniprotkb/P32770", "database": "UniProtKB", "categories": [ "Protein" ] }, { "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": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326", "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": "HVLELQPSSTGVLDKAQEIL", "down_seq": "PFPQSKNKPRPGDWNCPSCG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P32770", "url": "https://www.uniprot.org/uniprotkb/P32770" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser345" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "455", "end_pos": "455" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "213", "end_pos": "213" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "634", "end_pos": "634" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "716", "end_pos": "716" } ] } ], "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P32770-1.410.410", "start_pos": 410, "end_pos": 410, "uniprot_canonical_ac": "P32770-1", "length": 719, "uniprot_id": "DRI1_YEAST", "protein_name": "Putative RNA-binding protein involved in heterochromatin assembly", "refseq_ac": "NP_010114", "refseq_name": "Nrp1p", "gene_name": "NRP1", "gene_names_uniprotkb": "NRP1; ARP1; ARP", "gene_names_refseq": "NRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32770", "url": "https://www.uniprot.org/uniprotkb/P32770" } ], "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": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770", "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": "TANSNNNVNSSRNNLNNRVN", "down_seq": "GSSSNISNTAANHPYGAPEF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326" }, { "database": "iPTMnet", "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser410" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "455", "end_pos": "455" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "213", "end_pos": "213" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "634", "end_pos": "634" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "716", "end_pos": "716" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P32770-1.412.412", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P32770-1.417.417", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P32770-1.412.412", "start_pos": 412, "end_pos": 412, "uniprot_canonical_ac": "P32770-1", "length": 719, "uniprot_id": "DRI1_YEAST", "protein_name": "Putative RNA-binding protein involved in heterochromatin assembly", "refseq_ac": "NP_010114", "refseq_name": "Nrp1p", "gene_name": "NRP1", "gene_names_uniprotkb": "NRP1; ARP1; ARP", "gene_names_refseq": "NRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32770", "url": "https://www.uniprot.org/uniprotkb/P32770" } ], "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": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770", "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": "NSNNNVNSSRNNLNNRVNSG", "down_seq": "SSNISNTAANHPYGAPEFNM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326" }, { "database": "iPTMnet", "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser412" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "455", "end_pos": "455" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "213", "end_pos": "213" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "634", "end_pos": "634" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "716", "end_pos": "716" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P32770-1.410.410", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P32770-1.417.417", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P32770-1.417.417", "start_pos": 417, "end_pos": 417, "uniprot_canonical_ac": "P32770-1", "length": 719, "uniprot_id": "DRI1_YEAST", "protein_name": "Putative RNA-binding protein involved in heterochromatin assembly", "refseq_ac": "NP_010114", "refseq_name": "Nrp1p", "gene_name": "NRP1", "gene_names_uniprotkb": "NRP1; ARP1; ARP", "gene_names_refseq": "NRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32770", "url": "https://www.uniprot.org/uniprotkb/P32770" } ], "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": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770", "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": "VNSSRNNLNNRVNSGSSSNI", "down_seq": "NTAANHPYGAPEFNMIANNT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326" }, { "database": "iPTMnet", "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser417" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "455", "end_pos": "455" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "213", "end_pos": "213" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "634", "end_pos": "634" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "716", "end_pos": "716" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P32770-1.410.410", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P32770-1.412.412", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P32770-1.452.452", "start_pos": 452, "end_pos": 452, "uniprot_canonical_ac": "P32770-1", "length": 719, "uniprot_id": "DRI1_YEAST", "protein_name": "Putative RNA-binding protein involved in heterochromatin assembly", "refseq_ac": "NP_010114", "refseq_name": "Nrp1p", "gene_name": "NRP1", "gene_names_uniprotkb": "NRP1; ARP1; ARP", "gene_names_refseq": "NRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32770", "url": "https://www.uniprot.org/uniprotkb/P32770" } ], "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": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770", "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": "MIANNTPAALTYNRAHFPAI", "down_seq": "PLSRQNSLNMAPSNSGSPII", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326" }, { "database": "iPTMnet", "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr452" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "455", "end_pos": "455" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "213", "end_pos": "213" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "634", "end_pos": "634" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "716", "end_pos": "716" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P32770-1.455.455", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P32770-1.459.459", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P32770-1.467.467", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P32770-1.459.459", "start_pos": 459, "end_pos": 459, "uniprot_canonical_ac": "P32770-1", "length": 719, "uniprot_id": "DRI1_YEAST", "protein_name": "Putative RNA-binding protein involved in heterochromatin assembly", "refseq_ac": "NP_010114", "refseq_name": "Nrp1p", "gene_name": "NRP1", "gene_names_uniprotkb": "NRP1; ARP1; ARP", "gene_names_refseq": "NRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32770", "url": "https://www.uniprot.org/uniprotkb/P32770" } ], "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": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "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": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770", "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": "AALTYNRAHFPAITPLSRQN", "down_seq": "LNMAPSNSGSPIIIADHFSG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326" }, { "database": "iPTMnet", "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser459" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "455", "end_pos": "455" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "213", "end_pos": "213" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "634", "end_pos": "634" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "716", "end_pos": "716" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P32770-1.452.452", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P32770-1.455.455", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P32770-1.467.467", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P32770-1.467.467", "start_pos": 467, "end_pos": 467, "uniprot_canonical_ac": "P32770-1", "length": 719, "uniprot_id": "DRI1_YEAST", "protein_name": "Putative RNA-binding protein involved in heterochromatin assembly", "refseq_ac": "NP_010114", "refseq_name": "Nrp1p", "gene_name": "NRP1", "gene_names_uniprotkb": "NRP1; ARP1; ARP", "gene_names_refseq": "NRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32770", "url": "https://www.uniprot.org/uniprotkb/P32770" } ], "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": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770", "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": "HFPAITPLSRQNSLNMAPSN", "down_seq": "GSPIIIADHFSGNNNIAPNY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326" }, { "database": "iPTMnet", "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser467" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "455", "end_pos": "455" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "213", "end_pos": "213" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "634", "end_pos": "634" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "716", "end_pos": "716" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P32770-1.452.452", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P32770-1.455.455", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P32770-1.459.459", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P32770-1.609.609", "start_pos": 609, "end_pos": 609, "uniprot_canonical_ac": "P32770-1", "length": 719, "uniprot_id": "DRI1_YEAST", "protein_name": "Putative RNA-binding protein involved in heterochromatin assembly", "refseq_ac": "NP_010114", "refseq_name": "Nrp1p", "gene_name": "NRP1", "gene_names_uniprotkb": "NRP1; ARP1; ARP", "gene_names_refseq": "NRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32770", "url": "https://www.uniprot.org/uniprotkb/P32770" } ], "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": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770", "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": "TCTYHNFAKNVVCLRCGGPK", "down_seq": "ISGDASETNHYIDSSTFGPA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326" }, { "database": "iPTMnet", "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser609" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "455", "end_pos": "455" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "213", "end_pos": "213" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "634", "end_pos": "634" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "716", "end_pos": "716" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P32770-1.611.611", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P32770-1.611.611", "start_pos": 611, "end_pos": 611, "uniprot_canonical_ac": "P32770-1", "length": 719, "uniprot_id": "DRI1_YEAST", "protein_name": "Putative RNA-binding protein involved in heterochromatin assembly", "refseq_ac": "NP_010114", "refseq_name": "Nrp1p", "gene_name": "NRP1", "gene_names_uniprotkb": "NRP1; ARP1; ARP", "gene_names_refseq": "NRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32770", "url": "https://www.uniprot.org/uniprotkb/P32770" } ], "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": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770", "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": "TYHNFAKNVVCLRCGGPKSI", "down_seq": "GDASETNHYIDSSTFGPASR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326" }, { "database": "iPTMnet", "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser611" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "455", "end_pos": "455" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "213", "end_pos": "213" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "634", "end_pos": "634" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "716", "end_pos": "716" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P32770-1.609.609", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P32770-1.630.630", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P32770-1.630.630", "start_pos": 630, "end_pos": 630, "uniprot_canonical_ac": "P32770-1", "length": 719, "uniprot_id": "DRI1_YEAST", "protein_name": "Putative RNA-binding protein involved in heterochromatin assembly", "refseq_ac": "NP_010114", "refseq_name": "Nrp1p", "gene_name": "NRP1", "gene_names_uniprotkb": "NRP1; ARP1; ARP", "gene_names_refseq": "NRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32770", "url": "https://www.uniprot.org/uniprotkb/P32770" } ], "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": "P32770", "url": "https://www.uniprot.org/uniprotkb/P32770" }, { "database": "iPTMnet", "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "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": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "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": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "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": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P32770", "url": "https://www.uniprot.org/uniprotkb/P32770", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326", "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": "ISGDASETNHYIDSSTFGPA", "down_seq": "RTPSNNNISVNTNGGSNAGR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P32770", "url": "https://www.uniprot.org/uniprotkb/P32770" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" }, { "database": "SGD", "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326" }, { "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": "Ser630" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "455", "end_pos": "455" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "213", "end_pos": "213" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "634", "end_pos": "634" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "716", "end_pos": "716" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P32770-1.611.611", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P32770-1.632.632", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P32770-1.634.634", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P32770-1.632.632", "start_pos": 632, "end_pos": 632, "uniprot_canonical_ac": "P32770-1", "length": 719, "uniprot_id": "DRI1_YEAST", "protein_name": "Putative RNA-binding protein involved in heterochromatin assembly", "refseq_ac": "NP_010114", "refseq_name": "Nrp1p", "gene_name": "NRP1", "gene_names_uniprotkb": "NRP1; ARP1; ARP", "gene_names_refseq": "NRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32770", "url": "https://www.uniprot.org/uniprotkb/P32770" } ], "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": "P32770", "url": "https://www.uniprot.org/uniprotkb/P32770" }, { "database": "iPTMnet", "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "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": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326", "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": "GDASETNHYIDSSTFGPASR", "down_seq": "PSNNNISVNTNGGSNAGRTD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr632" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "455", "end_pos": "455" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "213", "end_pos": "213" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "634", "end_pos": "634" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "716", "end_pos": "716" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P32770-1.630.630", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P32770-1.634.634", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P32770-1.634.634", "start_pos": 634, "end_pos": 634, "uniprot_canonical_ac": "P32770-1", "length": 719, "uniprot_id": "DRI1_YEAST", "protein_name": "Putative RNA-binding protein involved in heterochromatin assembly", "refseq_ac": "NP_010114", "refseq_name": "Nrp1p", "gene_name": "NRP1", "gene_names_uniprotkb": "NRP1; ARP1; ARP", "gene_names_refseq": "NRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32770", "url": "https://www.uniprot.org/uniprotkb/P32770" } ], "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": "P32770", "url": "https://www.uniprot.org/uniprotkb/P32770" }, { "database": "iPTMnet", "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "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": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "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": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "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": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "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": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326", "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": "ASETNHYIDSSTFGPASRTP", "down_seq": "NNNISVNTNGGSNAGRTDGN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326" }, { "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": "Ser634" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "455", "end_pos": "455" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "213", "end_pos": "213" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "634", "end_pos": "634" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "716", "end_pos": "716" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P32770-1.630.630", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P32770-1.632.632", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P32770-1.668.668", "start_pos": 668, "end_pos": 668, "uniprot_canonical_ac": "P32770-1", "length": 719, "uniprot_id": "DRI1_YEAST", "protein_name": "Putative RNA-binding protein involved in heterochromatin assembly", "refseq_ac": "NP_010114", "refseq_name": "Nrp1p", "gene_name": "NRP1", "gene_names_uniprotkb": "NRP1; ARP1; ARP", "gene_names_refseq": "NRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32770", "url": "https://www.uniprot.org/uniprotkb/P32770" } ], "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": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770", "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": "AGRTDGNDNKGRDISLMEFM", "down_seq": "PPLSMATKSMKEGDGNGSSF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326" }, { "database": "iPTMnet", "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser668" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "455", "end_pos": "455" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "213", "end_pos": "213" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "634", "end_pos": "634" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "716", "end_pos": "716" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P32770-1.672.672", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P32770-1.672.672", "start_pos": 672, "end_pos": 672, "uniprot_canonical_ac": "P32770-1", "length": 719, "uniprot_id": "DRI1_YEAST", "protein_name": "Putative RNA-binding protein involved in heterochromatin assembly", "refseq_ac": "NP_010114", "refseq_name": "Nrp1p", "gene_name": "NRP1", "gene_names_uniprotkb": "NRP1; ARP1; ARP", "gene_names_refseq": "NRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32770", "url": "https://www.uniprot.org/uniprotkb/P32770" } ], "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": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770", "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": "DGNDNKGRDISLMEFMSPPL", "down_seq": "MATKSMKEGDGNGSSFNEFK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326" }, { "database": "iPTMnet", "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser672" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "455", "end_pos": "455" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "213", "end_pos": "213" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "634", "end_pos": "634" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "716", "end_pos": "716" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P32770-1.668.668", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P32770-1.716.716", "start_pos": 716, "end_pos": 716, "uniprot_canonical_ac": "P32770-1", "length": 719, "uniprot_id": "DRI1_YEAST", "protein_name": "Putative RNA-binding protein involved in heterochromatin assembly", "refseq_ac": "NP_010114", "refseq_name": "Nrp1p", "gene_name": "NRP1", "gene_names_uniprotkb": "NRP1; ARP1; ARP", "gene_names_refseq": "NRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32770", "url": "https://www.uniprot.org/uniprotkb/P32770" } ], "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": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770", "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": "ANVNFSNVGDNSAFGNGFNS", "down_seq": "IRW", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002326", "url": "https://www.yeastgenome.org/locus/S000002326" }, { "database": "iPTMnet", "id": "P32770", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32770" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser716" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "455", "end_pos": "455" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "213", "end_pos": "213" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "630", "end_pos": "630" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "634", "end_pos": "634" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "716", "end_pos": "716" } ] } ], "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": "P32775-1.190.190", "start_pos": 190, "end_pos": 190, "uniprot_canonical_ac": "P32775-1", "length": 704, "uniprot_id": "GLGB_YEAST", "protein_name": "1,4-alpha-glucan-branching enzyme", "refseq_ac": "NP_010905", "refseq_name": "1,4-alpha-glucan branching enzyme", "gene_name": "GLC3", "gene_names_uniprotkb": "GLC3", "gene_names_refseq": "GHA1; GLC3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32775", "url": "https://www.uniprot.org/uniprotkb/P32775" } ], "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": "P32775", "url": "https://www.uniprot.org/uniprotkb/P32775" }, { "database": "iPTMnet", "id": "P32775", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32775" } ], "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": "P32775", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32775" } ], "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": "P32775", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32775" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P32775", "url": "https://www.uniprot.org/uniprotkb/P32775", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P32775", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32775", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000000737", "url": "https://www.yeastgenome.org/locus/S000000737", "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": "RFWNPENPYKFVHPRPKFSE", "down_seq": "VDSLRIYEAHVGISSPEPKI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P32775", "url": "https://www.uniprot.org/uniprotkb/P32775" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P32775", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32775" }, { "database": "SGD", "id": "S000000737", "url": "https://www.yeastgenome.org/locus/S000000737" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser190" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "430", "end_pos": "430" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P32775-1.193.193", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P32775-1.205.205", "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": "P32775-1.193.193", "start_pos": 193, "end_pos": 193, "uniprot_canonical_ac": "P32775-1", "length": 704, "uniprot_id": "GLGB_YEAST", "protein_name": "1,4-alpha-glucan-branching enzyme", "refseq_ac": "NP_010905", "refseq_name": "1,4-alpha-glucan branching enzyme", "gene_name": "GLC3", "gene_names_uniprotkb": "GLC3", "gene_names_refseq": "GHA1; GLC3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32775", "url": "https://www.uniprot.org/uniprotkb/P32775" } ], "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": "P32775", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32775" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000737", "url": "https://www.yeastgenome.org/locus/S000000737", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P32775", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32775", "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": "NPENPYKFVHPRPKFSESVD", "down_seq": "LRIYEAHVGISSPEPKITTY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000737", "url": "https://www.yeastgenome.org/locus/S000000737" }, { "database": "iPTMnet", "id": "P32775", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32775" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser193" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "430", "end_pos": "430" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P32775-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P32775-1.205.205", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P32775-1.205.205", "start_pos": 205, "end_pos": 205, "uniprot_canonical_ac": "P32775-1", "length": 704, "uniprot_id": "GLGB_YEAST", "protein_name": "1,4-alpha-glucan-branching enzyme", "refseq_ac": "NP_010905", "refseq_name": "1,4-alpha-glucan branching enzyme", "gene_name": "GLC3", "gene_names_uniprotkb": "GLC3", "gene_names_refseq": "GHA1; GLC3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32775", "url": "https://www.uniprot.org/uniprotkb/P32775" } ], "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": "P32775", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32775" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000737", "url": "https://www.yeastgenome.org/locus/S000000737", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P32775", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32775", "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": "PKFSESVDSLRIYEAHVGIS", "down_seq": "PEPKITTYKEFTEKVLPRIK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000737", "url": "https://www.yeastgenome.org/locus/S000000737" }, { "database": "iPTMnet", "id": "P32775", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32775" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser205" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "430", "end_pos": "430" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P32775-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P32775-1.193.193", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P32775-1.373.373", "start_pos": 373, "end_pos": 373, "uniprot_canonical_ac": "P32775-1", "length": 704, "uniprot_id": "GLGB_YEAST", "protein_name": "1,4-alpha-glucan-branching enzyme", "refseq_ac": "NP_010905", "refseq_name": "1,4-alpha-glucan branching enzyme", "gene_name": "GLC3", "gene_names_uniprotkb": "GLC3", "gene_names_refseq": "GHA1; GLC3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32775", "url": "https://www.uniprot.org/uniprotkb/P32775" } ], "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": "P32775", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32775" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000737", "url": "https://www.yeastgenome.org/locus/S000000737", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P32775", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32775", "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": "FRFDGVTSMLYVHHGVGAGG", "down_seq": "FSGDYNEYLSRDRSFVDHEA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000737", "url": "https://www.yeastgenome.org/locus/S000000737" }, { "database": "iPTMnet", "id": "P32775", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32775" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser373" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "430", "end_pos": "430" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "upstream", "id": "P32775-1.383.383", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P32775-1.387.387", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P32775-1.383.383", "start_pos": 383, "end_pos": 383, "uniprot_canonical_ac": "P32775-1", "length": 704, "uniprot_id": "GLGB_YEAST", "protein_name": "1,4-alpha-glucan-branching enzyme", "refseq_ac": "NP_010905", "refseq_name": "1,4-alpha-glucan branching enzyme", "gene_name": "GLC3", "gene_names_uniprotkb": "GLC3", "gene_names_refseq": "GHA1; GLC3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32775", "url": "https://www.uniprot.org/uniprotkb/P32775" } ], "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": "iPTMnet", "id": "P32775", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32775" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P32775", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32775", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000737", "url": "https://www.yeastgenome.org/locus/S000000737", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YVHHGVGAGGSFSGDYNEYL", "down_seq": "RDRSFVDHEALAYLMLANDL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P32775", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32775" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000737", "url": "https://www.yeastgenome.org/locus/S000000737" } ], "site_lbl": "Ser383" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "430", "end_pos": "430" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P32775-1.373.373", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P32775-1.387.387", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P32775-1.387.387", "start_pos": 387, "end_pos": 387, "uniprot_canonical_ac": "P32775-1", "length": 704, "uniprot_id": "GLGB_YEAST", "protein_name": "1,4-alpha-glucan-branching enzyme", "refseq_ac": "NP_010905", "refseq_name": "1,4-alpha-glucan branching enzyme", "gene_name": "GLC3", "gene_names_uniprotkb": "GLC3", "gene_names_refseq": "GHA1; GLC3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32775", "url": "https://www.uniprot.org/uniprotkb/P32775" } ], "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": "P32775", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32775" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000737", "url": "https://www.yeastgenome.org/locus/S000000737", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P32775", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32775", "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": "GVGAGGSFSGDYNEYLSRDR", "down_seq": "FVDHEALAYLMLANDLVHEM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000737", "url": "https://www.yeastgenome.org/locus/S000000737" }, { "database": "iPTMnet", "id": "P32775", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32775" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser387" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "430", "end_pos": "430" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P32775-1.373.373", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P32775-1.383.383", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P32775-1.430.430", "start_pos": 430, "end_pos": 430, "uniprot_canonical_ac": "P32775-1", "length": 704, "uniprot_id": "GLGB_YEAST", "protein_name": "1,4-alpha-glucan-branching enzyme", "refseq_ac": "NP_010905", "refseq_name": "1,4-alpha-glucan branching enzyme", "gene_name": "GLC3", "gene_names_uniprotkb": "GLC3", "gene_names_refseq": "GHA1; GLC3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32775", "url": "https://www.uniprot.org/uniprotkb/P32775" } ], "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": "iPTMnet", "id": "P32775", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32775" } ], "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": "P32775", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32775" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P32775", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32775", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000737", "url": "https://www.yeastgenome.org/locus/S000000737", "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": "NLAVTVAEDVSGYPTLCLPR", "down_seq": "IGGTGFDYRLAMALPDMWIK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P32775", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32775" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000737", "url": "https://www.yeastgenome.org/locus/S000000737" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser430" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "430", "end_pos": "430" } ] } ], "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": "P32806-1.102.102", "start_pos": 102, "end_pos": 102, "uniprot_canonical_ac": "P32806-1", "length": 458, "uniprot_id": "GYP6_YEAST", "protein_name": "GTPase-activating protein GYP6", "refseq_ac": "NP_012491", "refseq_name": "GTPase-activating protein GYP6", "gene_name": "GYP6", "gene_names_uniprotkb": "GYP6; J1202", "gene_names_refseq": "GYP6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32806", "url": "https://www.uniprot.org/uniprotkb/P32806" } ], "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": "P32806", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32806" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000003580", "url": "https://www.yeastgenome.org/locus/S000003580", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P32806", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32806", "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": "NYDENHNANVPKRVLHSNVS", "down_seq": "SVGIRRLTPVEAVEKHPLSD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003580", "url": "https://www.yeastgenome.org/locus/S000003580" }, { "database": "iPTMnet", "id": "P32806", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32806" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser102" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P32806-1.98.98", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P32806-1.110.110", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P32806-1.121.121", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P32806-1.110.110", "start_pos": 110, "end_pos": 110, "uniprot_canonical_ac": "P32806-1", "length": 458, "uniprot_id": "GYP6_YEAST", "protein_name": "GTPase-activating protein GYP6", "refseq_ac": "NP_012491", "refseq_name": "GTPase-activating protein GYP6", "gene_name": "GYP6", "gene_names_uniprotkb": "GYP6; J1202", "gene_names_refseq": "GYP6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32806", "url": "https://www.uniprot.org/uniprotkb/P32806" } ], "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": "P32806", "url": "https://www.uniprot.org/uniprotkb/P32806" }, { "database": "iPTMnet", "id": "P32806", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32806" } ], "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": "P32806", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32806" } ], "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": "P32806", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32806" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003580", "url": "https://www.yeastgenome.org/locus/S000003580", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P32806", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32806", "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": "NVPKRVLHSNVSSSVGIRRL", "down_seq": "PVEAVEKHPLSDDNDKTKGS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003580", "url": "https://www.yeastgenome.org/locus/S000003580" }, { "database": "iPTMnet", "id": "P32806", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32806" }, { "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": "Thr110" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P32806-1.98.98", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P32806-1.102.102", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P32806-1.121.121", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P32806-1.121.121", "start_pos": 121, "end_pos": 121, "uniprot_canonical_ac": "P32806-1", "length": 458, "uniprot_id": "GYP6_YEAST", "protein_name": "GTPase-activating protein GYP6", "refseq_ac": "NP_012491", "refseq_name": "GTPase-activating protein GYP6", "gene_name": "GYP6", "gene_names_uniprotkb": "GYP6; J1202", "gene_names_refseq": "GYP6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32806", "url": "https://www.uniprot.org/uniprotkb/P32806" } ], "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": "P32806", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32806" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003580", "url": "https://www.yeastgenome.org/locus/S000003580", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P32806", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32806", "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": "SSSVGIRRLTPVEAVEKHPL", "down_seq": "DDNDKTKGSLSKGSDEKPLT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003580", "url": "https://www.yeastgenome.org/locus/S000003580" }, { "database": "iPTMnet", "id": "P32806", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32806" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser121" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P32806-1.102.102", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P32806-1.110.110", "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": "P32806-1.422.422", "start_pos": 422, "end_pos": 422, "uniprot_canonical_ac": "P32806-1", "length": 458, "uniprot_id": "GYP6_YEAST", "protein_name": "GTPase-activating protein GYP6", "refseq_ac": "NP_012491", "refseq_name": "GTPase-activating protein GYP6", "gene_name": "GYP6", "gene_names_uniprotkb": "GYP6; J1202", "gene_names_refseq": "GYP6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32806", "url": "https://www.uniprot.org/uniprotkb/P32806" } ], "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": "P32806", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32806" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003580", "url": "https://www.yeastgenome.org/locus/S000003580", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P32806", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32806", "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": "RLICDTFINAKFGIKTSDVL", "down_seq": "METAKLTIDPNRQSLENKLR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003580", "url": "https://www.yeastgenome.org/locus/S000003580" }, { "database": "iPTMnet", "id": "P32806", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32806" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser422" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "upstream", "id": "P32806-1.436.436", "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": "P32806-1.436.436", "start_pos": 436, "end_pos": 436, "uniprot_canonical_ac": "P32806-1", "length": 458, "uniprot_id": "GYP6_YEAST", "protein_name": "GTPase-activating protein GYP6", "refseq_ac": "NP_012491", "refseq_name": "GTPase-activating protein GYP6", "gene_name": "GYP6", "gene_names_uniprotkb": "GYP6; J1202", "gene_names_refseq": "GYP6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32806", "url": "https://www.uniprot.org/uniprotkb/P32806" } ], "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": "P32806", "url": "https://www.uniprot.org/uniprotkb/P32806" }, { "database": "iPTMnet", "id": "P32806", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32806" } ], "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": "P32806", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32806" } ], "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": "P32806", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32806" } ], "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": "P32806", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32806" } ], "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": "P32806", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32806" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P32806", "url": "https://www.uniprot.org/uniprotkb/P32806", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003580", "url": "https://www.yeastgenome.org/locus/S000003580", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P32806", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32806", "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": "KTSDVLSMETAKLTIDPNRQ", "down_seq": "LENKLRERVRQTILKNKKKI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P32806", "url": "https://www.uniprot.org/uniprotkb/P32806" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000003580", "url": "https://www.yeastgenome.org/locus/S000003580" }, { "database": "iPTMnet", "id": "P32806", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32806" }, { "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": "Ser436" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P32806-1.422.422", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P32806-1.98.98", "start_pos": 98, "end_pos": 98, "uniprot_canonical_ac": "P32806-1", "length": 458, "uniprot_id": "GYP6_YEAST", "protein_name": "GTPase-activating protein GYP6", "refseq_ac": "NP_012491", "refseq_name": "GTPase-activating protein GYP6", "gene_name": "GYP6", "gene_names_uniprotkb": "GYP6; J1202", "gene_names_refseq": "GYP6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32806", "url": "https://www.uniprot.org/uniprotkb/P32806" } ], "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": "P32806", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32806" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003580", "url": "https://www.yeastgenome.org/locus/S000003580", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P32806", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32806", "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": "ADGDNYDENHNANVPKRVLH", "down_seq": "NVSSSVGIRRLTPVEAVEKH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003580", "url": "https://www.yeastgenome.org/locus/S000003580" }, { "database": "iPTMnet", "id": "P32806", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32806" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser98" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P32806-1.102.102", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P32806-1.110.110", "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": "P32857-1.132.132", "start_pos": 132, "end_pos": 132, "uniprot_canonical_ac": "P32857-1", "length": 523, "uniprot_id": "PTM1_YEAST", "protein_name": "Membrane protein PTM1", "refseq_ac": "NP_012885", "refseq_name": "Ptm1p", "gene_name": "PTM1", "gene_names_uniprotkb": "PTM1; YKL252", "gene_names_refseq": "PTM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32857", "url": "https://www.uniprot.org/uniprotkb/P32857" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P32857", "url": "https://www.uniprot.org/uniprotkb/P32857", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "EENRDEFIVQDVVYDPYTST", "down_seq": "RSLANPIMTFSQNEVGLHDT", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn132", "evidence": [ { "id": "P32857", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P32857#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "132", "end_pos": "132" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "472", "end_pos": "472" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "522", "end_pos": "522" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P32857-1.472.472", "start_pos": 472, "end_pos": 472, "uniprot_canonical_ac": "P32857-1", "length": 523, "uniprot_id": "PTM1_YEAST", "protein_name": "Membrane protein PTM1", "refseq_ac": "NP_012885", "refseq_name": "Ptm1p", "gene_name": "PTM1", "gene_names_uniprotkb": "PTM1; YKL252", "gene_names_refseq": "PTM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32857", "url": "https://www.uniprot.org/uniprotkb/P32857" } ], "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": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001522", "url": "https://www.yeastgenome.org/locus/S000001522", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857", "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": "SQQLPTDPENVADFDLGDLQ", "down_seq": "FDDQDDASIITGERGIDEDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001522", "url": "https://www.yeastgenome.org/locus/S000001522" }, { "database": "iPTMnet", "id": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser472" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "132", "end_pos": "132" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "472", "end_pos": "472" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "522", "end_pos": "522" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "P32857-1.480.480", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P32857-1.483.483", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P32857-1.480.480", "start_pos": 480, "end_pos": 480, "uniprot_canonical_ac": "P32857-1", "length": 523, "uniprot_id": "PTM1_YEAST", "protein_name": "Membrane protein PTM1", "refseq_ac": "NP_012885", "refseq_name": "Ptm1p", "gene_name": "PTM1", "gene_names_uniprotkb": "PTM1; YKL252", "gene_names_refseq": "PTM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32857", "url": "https://www.uniprot.org/uniprotkb/P32857" } ], "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": "P32857", "url": "https://www.uniprot.org/uniprotkb/P32857" }, { "database": "iPTMnet", "id": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857" } ], "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": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P32857", "url": "https://www.uniprot.org/uniprotkb/P32857", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000001522", "url": "https://www.yeastgenome.org/locus/S000001522", "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": "ENVADFDLGDLQSFDDQDDA", "down_seq": "IITGERGIDEDDLNLNFTDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P32857", "url": "https://www.uniprot.org/uniprotkb/P32857" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857" }, { "database": "SGD", "id": "S000001522", "url": "https://www.yeastgenome.org/locus/S000001522" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser480" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "132", "end_pos": "132" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "472", "end_pos": "472" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "522", "end_pos": "522" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P32857-1.472.472", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P32857-1.483.483", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P32857-1.498.498", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P32857-1.483.483", "start_pos": 483, "end_pos": 483, "uniprot_canonical_ac": "P32857-1", "length": 523, "uniprot_id": "PTM1_YEAST", "protein_name": "Membrane protein PTM1", "refseq_ac": "NP_012885", "refseq_name": "Ptm1p", "gene_name": "PTM1", "gene_names_uniprotkb": "PTM1; YKL252", "gene_names_refseq": "PTM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32857", "url": "https://www.uniprot.org/uniprotkb/P32857" } ], "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": "P32857", "url": "https://www.uniprot.org/uniprotkb/P32857" }, { "database": "iPTMnet", "id": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P32857", "url": "https://www.uniprot.org/uniprotkb/P32857", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000001522", "url": "https://www.yeastgenome.org/locus/S000001522", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ADFDLGDLQSFDDQDDASII", "down_seq": "GERGIDEDDLNLNFTDDEEG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P32857", "url": "https://www.uniprot.org/uniprotkb/P32857" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857" }, { "database": "SGD", "id": "S000001522", "url": "https://www.yeastgenome.org/locus/S000001522" } ], "site_lbl": "Thr483" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "132", "end_pos": "132" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "472", "end_pos": "472" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "522", "end_pos": "522" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P32857-1.472.472", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P32857-1.480.480", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P32857-1.498.498", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P32857-1.498.498", "start_pos": 498, "end_pos": 498, "uniprot_canonical_ac": "P32857-1", "length": 523, "uniprot_id": "PTM1_YEAST", "protein_name": "Membrane protein PTM1", "refseq_ac": "NP_012885", "refseq_name": "Ptm1p", "gene_name": "PTM1", "gene_names_uniprotkb": "PTM1; YKL252", "gene_names_refseq": "PTM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32857", "url": "https://www.uniprot.org/uniprotkb/P32857" } ], "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": "P32857", "url": "https://www.uniprot.org/uniprotkb/P32857" }, { "database": "iPTMnet", "id": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "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": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857" } ], "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": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P32857", "url": "https://www.uniprot.org/uniprotkb/P32857", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001522", "url": "https://www.yeastgenome.org/locus/S000001522", "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": "DASIITGERGIDEDDLNLNF", "down_seq": "DDEEGHDNVNNHSQGHGPVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P32857", "url": "https://www.uniprot.org/uniprotkb/P32857" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001522", "url": "https://www.yeastgenome.org/locus/S000001522" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr498" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "132", "end_pos": "132" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "472", "end_pos": "472" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "522", "end_pos": "522" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P32857-1.480.480", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P32857-1.483.483", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P32857-1.511.511", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P32857-1.518.518", "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": "P32857-1.511.511", "start_pos": 511, "end_pos": 511, "uniprot_canonical_ac": "P32857-1", "length": 523, "uniprot_id": "PTM1_YEAST", "protein_name": "Membrane protein PTM1", "refseq_ac": "NP_012885", "refseq_name": "Ptm1p", "gene_name": "PTM1", "gene_names_uniprotkb": "PTM1; YKL252", "gene_names_refseq": "PTM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32857", "url": "https://www.uniprot.org/uniprotkb/P32857" } ], "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": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001522", "url": "https://www.yeastgenome.org/locus/S000001522", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857", "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": "DDLNLNFTDDEEGHDNVNNH", "down_seq": "QGHGPVSPSPTK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001522", "url": "https://www.yeastgenome.org/locus/S000001522" }, { "database": "iPTMnet", "id": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser511" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "132", "end_pos": "132" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "472", "end_pos": "472" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "522", "end_pos": "522" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P32857-1.498.498", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P32857-1.518.518", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P32857-1.520.520", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P32857-1.522.522", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P32857-1.518.518", "start_pos": 518, "end_pos": 518, "uniprot_canonical_ac": "P32857-1", "length": 523, "uniprot_id": "PTM1_YEAST", "protein_name": "Membrane protein PTM1", "refseq_ac": "NP_012885", "refseq_name": "Ptm1p", "gene_name": "PTM1", "gene_names_uniprotkb": "PTM1; YKL252", "gene_names_refseq": "PTM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32857", "url": "https://www.uniprot.org/uniprotkb/P32857" } ], "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": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857" } ], "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": "P32857", "url": "https://www.uniprot.org/uniprotkb/P32857" }, { "database": "iPTMnet", "id": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857" } ], "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": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857" } ], "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": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001522", "url": "https://www.yeastgenome.org/locus/S000001522", "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": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TDDEEGHDNVNNHSQGHGPV", "down_seq": "PSPTK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001522", "url": "https://www.yeastgenome.org/locus/S000001522" }, { "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": "Ser518" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "132", "end_pos": "132" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "472", "end_pos": "472" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "522", "end_pos": "522" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P32857-1.498.498", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P32857-1.511.511", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P32857-1.520.520", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P32857-1.522.522", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P32857-1.520.520", "start_pos": 520, "end_pos": 520, "uniprot_canonical_ac": "P32857-1", "length": 523, "uniprot_id": "PTM1_YEAST", "protein_name": "Membrane protein PTM1", "refseq_ac": "NP_012885", "refseq_name": "Ptm1p", "gene_name": "PTM1", "gene_names_uniprotkb": "PTM1; YKL252", "gene_names_refseq": "PTM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32857", "url": "https://www.uniprot.org/uniprotkb/P32857" } ], "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": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857" } ], "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": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001522", "url": "https://www.yeastgenome.org/locus/S000001522", "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": "DEEGHDNVNNHSQGHGPVSP", "down_seq": "PTK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001522", "url": "https://www.yeastgenome.org/locus/S000001522" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser520" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "132", "end_pos": "132" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "472", "end_pos": "472" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "522", "end_pos": "522" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P32857-1.511.511", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P32857-1.518.518", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P32857-1.522.522", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P32857-1.522.522", "start_pos": 522, "end_pos": 522, "uniprot_canonical_ac": "P32857-1", "length": 523, "uniprot_id": "PTM1_YEAST", "protein_name": "Membrane protein PTM1", "refseq_ac": "NP_012885", "refseq_name": "Ptm1p", "gene_name": "PTM1", "gene_names_uniprotkb": "PTM1; YKL252", "gene_names_refseq": "PTM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32857", "url": "https://www.uniprot.org/uniprotkb/P32857" } ], "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": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857", "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": "EGHDNVNNHSQGHGPVSPSP", "down_seq": "", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P32857", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P32857" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Thr522" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "132", "end_pos": "132" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "472", "end_pos": "472" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "522", "end_pos": "522" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P32857-1.511.511", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P32857-1.518.518", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P32857-1.520.520", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P32858-1.44.44", "start_pos": 44, "end_pos": 44, "uniprot_canonical_ac": "P32858-1", "length": 118, "uniprot_id": "AIM26_YEAST", "protein_name": "Altered inheritance of mitochondria protein 26, mitochondrial", "refseq_ac": "NP_012887", "refseq_name": "Aim26p", "gene_name": "AIM26", "gene_names_uniprotkb": "AIM26; YKL250", "gene_names_refseq": "AIM26", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P32858", "url": "https://www.uniprot.org/uniprotkb/P32858" } ], "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": "AYFFRGRSPYYARCYRRLAV", "down_seq": "PGAITIAIAIATDSIPALAK", "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": "Thr44", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "44", "end_pos": "44" } ] } ], "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": 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": "P33304-1.22.22", "start_pos": 22, "end_pos": 22, "uniprot_canonical_ac": "P33304-1", "length": 620, "uniprot_id": "AFR1_YEAST", "protein_name": "Protein AFR1", "refseq_ac": "NP_010370", "refseq_name": "Afr1p", "gene_name": "AFR1", "gene_names_uniprotkb": "AFR1; D4471", "gene_names_refseq": "AFR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P33304", "url": "https://www.uniprot.org/uniprotkb/P33304" } ], "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": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] } ], "crossref": [ { "id": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002492", "url": "https://www.yeastgenome.org/locus/S000002492", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EGSYLSAQENQPIPERLIPR", "down_seq": "NSTSNLFALSSTFSKLNVRN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "SGD", "id": "S000002492", "url": "https://www.yeastgenome.org/locus/S000002492" } ], "site_lbl": "Ser22" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "22", "end_pos": "22" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P33304-1.24.24", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P33304-1.244.244", "start_pos": 244, "end_pos": 244, "uniprot_canonical_ac": "P33304-1", "length": 620, "uniprot_id": "AFR1_YEAST", "protein_name": "Protein AFR1", "refseq_ac": "NP_010370", "refseq_name": "Afr1p", "gene_name": "AFR1", "gene_names_uniprotkb": "AFR1; D4471", "gene_names_refseq": "AFR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P33304", "url": "https://www.uniprot.org/uniprotkb/P33304" } ], "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": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002492", "url": "https://www.yeastgenome.org/locus/S000002492", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304", "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": "SSVSSTSPISAVNTLTSLPE", "down_seq": "QTDDDDGYENKTVTISYCFE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002492", "url": "https://www.yeastgenome.org/locus/S000002492" }, { "database": "iPTMnet", "id": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser244" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "22", "end_pos": "22" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "537", "end_pos": "537" }, { "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": "P33304-1.24.24", "start_pos": 24, "end_pos": 24, "uniprot_canonical_ac": "P33304-1", "length": 620, "uniprot_id": "AFR1_YEAST", "protein_name": "Protein AFR1", "refseq_ac": "NP_010370", "refseq_name": "Afr1p", "gene_name": "AFR1", "gene_names_uniprotkb": "AFR1; D4471", "gene_names_refseq": "AFR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P33304", "url": "https://www.uniprot.org/uniprotkb/P33304" } ], "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": "P33304", "url": "https://www.uniprot.org/uniprotkb/P33304" }, { "database": "iPTMnet", "id": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304" } ], "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": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304" } ], "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": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002492", "url": "https://www.yeastgenome.org/locus/S000002492", "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": "SYLSAQENQPIPERLIPRSN", "down_seq": "TSNLFALSSTFSKLNVRNDA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "SGD", "id": "S000002492", "url": "https://www.yeastgenome.org/locus/S000002492" }, { "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": "Ser24" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "22", "end_pos": "22" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P33304-1.22.22", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P33304-1.427.427", "start_pos": 427, "end_pos": 427, "uniprot_canonical_ac": "P33304-1", "length": 620, "uniprot_id": "AFR1_YEAST", "protein_name": "Protein AFR1", "refseq_ac": "NP_010370", "refseq_name": "Afr1p", "gene_name": "AFR1", "gene_names_uniprotkb": "AFR1; D4471", "gene_names_refseq": "AFR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P33304", "url": "https://www.uniprot.org/uniprotkb/P33304" } ], "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": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002492", "url": "https://www.yeastgenome.org/locus/S000002492", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304", "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": "RQLEIRQKLHETSHNDDGKV", "down_seq": "FRDTEKHNVNEGLIDKTIIE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002492", "url": "https://www.yeastgenome.org/locus/S000002492" }, { "database": "iPTMnet", "id": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser427" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "22", "end_pos": "22" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "537", "end_pos": "537" }, { "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": "P33304-1.472.472", "start_pos": 472, "end_pos": 472, "uniprot_canonical_ac": "P33304-1", "length": 620, "uniprot_id": "AFR1_YEAST", "protein_name": "Protein AFR1", "refseq_ac": "NP_010370", "refseq_name": "Afr1p", "gene_name": "AFR1", "gene_names_uniprotkb": "AFR1; D4471", "gene_names_refseq": "AFR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P33304", "url": "https://www.uniprot.org/uniprotkb/P33304" } ], "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": "P33304", "url": "https://www.uniprot.org/uniprotkb/P33304" }, { "database": "iPTMnet", "id": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304" } ], "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": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304" } ], "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": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304" } ], "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": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P33304", "url": "https://www.uniprot.org/uniprotkb/P33304", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002492", "url": "https://www.yeastgenome.org/locus/S000002492", "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": "LGEYIIDTRNQPPPRSSKRP", "down_seq": "LDDNESARYFYNISTDLRQS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P33304", "url": "https://www.uniprot.org/uniprotkb/P33304" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304" }, { "database": "SGD", "id": "S000002492", "url": "https://www.yeastgenome.org/locus/S000002492" }, { "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": "Ser472" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "22", "end_pos": "22" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P33304-1.478.478", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P33304-1.478.478", "start_pos": 478, "end_pos": 478, "uniprot_canonical_ac": "P33304-1", "length": 620, "uniprot_id": "AFR1_YEAST", "protein_name": "Protein AFR1", "refseq_ac": "NP_010370", "refseq_name": "Afr1p", "gene_name": "AFR1", "gene_names_uniprotkb": "AFR1; D4471", "gene_names_refseq": "AFR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P33304", "url": "https://www.uniprot.org/uniprotkb/P33304" } ], "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": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002492", "url": "https://www.yeastgenome.org/locus/S000002492", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304", "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": "DTRNQPPPRSSKRPSLDDNE", "down_seq": "ARYFYNISTDLRQSLSGPIS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002492", "url": "https://www.yeastgenome.org/locus/S000002492" }, { "database": "iPTMnet", "id": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser478" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "22", "end_pos": "22" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P33304-1.472.472", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P33304-1.526.526", "start_pos": 526, "end_pos": 526, "uniprot_canonical_ac": "P33304-1", "length": 620, "uniprot_id": "AFR1_YEAST", "protein_name": "Protein AFR1", "refseq_ac": "NP_010370", "refseq_name": "Afr1p", "gene_name": "AFR1", "gene_names_uniprotkb": "AFR1; D4471", "gene_names_refseq": "AFR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P33304", "url": "https://www.uniprot.org/uniprotkb/P33304" } ], "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": "P33304", "url": "https://www.uniprot.org/uniprotkb/P33304" }, { "database": "iPTMnet", "id": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304" } ], "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": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304" } ], "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": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P33304", "url": "https://www.uniprot.org/uniprotkb/P33304", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002492", "url": "https://www.yeastgenome.org/locus/S000002492", "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": "DMVNRLRNDWEYIRFEDRRN", "down_seq": "LPDSSFDKVETPPKPIKKDV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P33304", "url": "https://www.uniprot.org/uniprotkb/P33304" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304" }, { "database": "SGD", "id": "S000002492", "url": "https://www.yeastgenome.org/locus/S000002492" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser526" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "22", "end_pos": "22" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "upstream", "id": "P33304-1.537.537", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P33304-1.537.537", "start_pos": 537, "end_pos": 537, "uniprot_canonical_ac": "P33304-1", "length": 620, "uniprot_id": "AFR1_YEAST", "protein_name": "Protein AFR1", "refseq_ac": "NP_010370", "refseq_name": "Afr1p", "gene_name": "AFR1", "gene_names_uniprotkb": "AFR1; D4471", "gene_names_refseq": "AFR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P33304", "url": "https://www.uniprot.org/uniprotkb/P33304" } ], "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": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002492", "url": "https://www.yeastgenome.org/locus/S000002492", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304", "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": "YIRFEDRRNSLPDSSFDKVE", "down_seq": "PPKPIKKDVRFAKEVCLAST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002492", "url": "https://www.yeastgenome.org/locus/S000002492" }, { "database": "iPTMnet", "id": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr537" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "22", "end_pos": "22" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P33304-1.526.526", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P33304-1.79.79", "start_pos": 79, "end_pos": 79, "uniprot_canonical_ac": "P33304-1", "length": 620, "uniprot_id": "AFR1_YEAST", "protein_name": "Protein AFR1", "refseq_ac": "NP_010370", "refseq_name": "Afr1p", "gene_name": "AFR1", "gene_names_uniprotkb": "AFR1; D4471", "gene_names_refseq": "AFR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P33304", "url": "https://www.uniprot.org/uniprotkb/P33304" } ], "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": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304" } ], "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": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002492", "url": "https://www.yeastgenome.org/locus/S000002492", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304", "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": "SGEIDCRSVTAARKFPVRSC", "down_seq": "MTAAQQRKRTALFTVRERNS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002492", "url": "https://www.yeastgenome.org/locus/S000002492" }, { "database": "iPTMnet", "id": "P33304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33304" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser79" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "22", "end_pos": "22" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "537", "end_pos": "537" }, { "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P33331-1.25.25", "start_pos": 25, "end_pos": 25, "uniprot_canonical_ac": "P33331-1", "length": 125, "uniprot_id": "NTF2_YEAST", "protein_name": "Nuclear transport factor 2", "refseq_ac": "NP_010925", "refseq_name": "Ran GTPase-binding protein NTF2", "gene_name": "NTF2", "gene_names_uniprotkb": "NTF2", "gene_names_refseq": "NTF2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P33331", "url": "https://www.uniprot.org/uniprotkb/P33331" } ], "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": "P33331", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33331" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000811", "url": "https://www.yeastgenome.org/locus/S000000811", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P33331", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33331", "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": "FNTLAQNFTQFYYNQFDTDR", "down_seq": "QLGNLYRNESMLTFETSQLQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000811", "url": "https://www.yeastgenome.org/locus/S000000811" }, { "database": "iPTMnet", "id": "P33331", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33331" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser25" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "25", "end_pos": "25" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "56", "end_pos": "56" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "upstream", "id": "P33331-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P33331-1.41.41", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P33331-1.42.42", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P33331-1.35.35", "start_pos": 35, "end_pos": 35, "uniprot_canonical_ac": "P33331-1", "length": 125, "uniprot_id": "NTF2_YEAST", "protein_name": "Nuclear transport factor 2", "refseq_ac": "NP_010925", "refseq_name": "Ran GTPase-binding protein NTF2", "gene_name": "NTF2", "gene_names_uniprotkb": "NTF2", "gene_names_refseq": "NTF2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P33331", "url": "https://www.uniprot.org/uniprotkb/P33331" } ], "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": "P33331", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33331" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000811", "url": "https://www.yeastgenome.org/locus/S000000811", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P33331", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33331", "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": "FYYNQFDTDRSQLGNLYRNE", "down_seq": "MLTFETSQLQGAKDIVEKLV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000811", "url": "https://www.yeastgenome.org/locus/S000000811" }, { "database": "iPTMnet", "id": "P33331", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33331" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser35" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "25", "end_pos": "25" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "56", "end_pos": "56" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P33331-1.25.25", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P33331-1.41.41", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P33331-1.42.42", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P33331-1.41.41", "start_pos": 41, "end_pos": 41, "uniprot_canonical_ac": "P33331-1", "length": 125, "uniprot_id": "NTF2_YEAST", "protein_name": "Nuclear transport factor 2", "refseq_ac": "NP_010925", "refseq_name": "Ran GTPase-binding protein NTF2", "gene_name": "NTF2", "gene_names_uniprotkb": "NTF2", "gene_names_refseq": "NTF2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P33331", "url": "https://www.uniprot.org/uniprotkb/P33331" } ], "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": "P33331", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33331" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000811", "url": "https://www.yeastgenome.org/locus/S000000811", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P33331", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33331", "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": "DTDRSQLGNLYRNESMLTFE", "down_seq": "SQLQGAKDIVEKLVSLPFQK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000811", "url": "https://www.yeastgenome.org/locus/S000000811" }, { "database": "iPTMnet", "id": "P33331", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33331" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr41" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "25", "end_pos": "25" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "56", "end_pos": "56" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P33331-1.25.25", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P33331-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P33331-1.42.42", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P33331-1.56.56", "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": "P33331-1.42.42", "start_pos": 42, "end_pos": 42, "uniprot_canonical_ac": "P33331-1", "length": 125, "uniprot_id": "NTF2_YEAST", "protein_name": "Nuclear transport factor 2", "refseq_ac": "NP_010925", "refseq_name": "Ran GTPase-binding protein NTF2", "gene_name": "NTF2", "gene_names_uniprotkb": "NTF2", "gene_names_refseq": "NTF2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P33331", "url": "https://www.uniprot.org/uniprotkb/P33331" } ], "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": "P33331", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33331" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000811", "url": "https://www.yeastgenome.org/locus/S000000811", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P33331", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33331", "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": "TDRSQLGNLYRNESMLTFET", "down_seq": "QLQGAKDIVEKLVSLPFQKV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000811", "url": "https://www.yeastgenome.org/locus/S000000811" }, { "database": "iPTMnet", "id": "P33331", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33331" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser42" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "25", "end_pos": "25" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "56", "end_pos": "56" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P33331-1.25.25", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P33331-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P33331-1.41.41", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P33331-1.56.56", "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": "P33331-1.56.56", "start_pos": 56, "end_pos": 56, "uniprot_canonical_ac": "P33331-1", "length": 125, "uniprot_id": "NTF2_YEAST", "protein_name": "Nuclear transport factor 2", "refseq_ac": "NP_010925", "refseq_name": "Ran GTPase-binding protein NTF2", "gene_name": "NTF2", "gene_names_uniprotkb": "NTF2", "gene_names_refseq": "NTF2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P33331", "url": "https://www.uniprot.org/uniprotkb/P33331" } ], "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": "P33331", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33331" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000811", "url": "https://www.yeastgenome.org/locus/S000000811", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P33331", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33331", "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": "MLTFETSQLQGAKDIVEKLV", "down_seq": "LPFQKVQHRITTLDAQPASP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000811", "url": "https://www.yeastgenome.org/locus/S000000811" }, { "database": "iPTMnet", "id": "P33331", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P33331" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser56" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "25", "end_pos": "25" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "56", "end_pos": "56" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P33331-1.41.41", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P33331-1.42.42", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34228-1.1045.1045", "start_pos": 1045, "end_pos": 1045, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P34228" }, { "database": "O-GlcNAc Atlas", "id": "P34228", "url": "https://oglcnac.org/atlas/detail/P34228" } ], "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": "P34228", "url": "https://oglcnac.org/atlas/detail/P34228", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NAIGRSQSSMSHSRTPIASK", "down_seq": "NNMTDLHSVVSDPGSSKSTA", "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": "Ser1045", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P34228", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P34228" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "P34228-1.1053.1053", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P34228-1.1056.1056", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P34228-1.1060.1060", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P34228-1.1061.1061", "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": "P34228-1.1060.1060", "start_pos": 1060, "end_pos": 1060, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P34228" }, { "database": "O-GlcNAc Atlas", "id": "P34228", "url": "https://oglcnac.org/atlas/detail/P34228" } ], "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": "P34228", "url": "https://oglcnac.org/atlas/detail/P34228", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PIASKSNNMTDLHSVVSDPG", "down_seq": "SKSTAYPPLSLFSKSNDINS", "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": "Ser1060", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P34228", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P34228" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P34228-1.1045.1045", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P34228-1.1053.1053", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P34228-1.1056.1056", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P34228-1.1061.1061", "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": "P34228-1.1061.1061", "start_pos": 1061, "end_pos": 1061, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P34228" }, { "database": "O-GlcNAc Atlas", "id": "P34228", "url": "https://oglcnac.org/atlas/detail/P34228" } ], "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": "P34228", "url": "https://oglcnac.org/atlas/detail/P34228", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IASKSNNMTDLHSVVSDPGS", "down_seq": "KSTAYPPLSLFSKSNDINSN", "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": "Ser1061", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P34228", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P34228" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P34228-1.1045.1045", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P34228-1.1053.1053", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P34228-1.1056.1056", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P34228-1.1060.1060", "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": "P34228-1.1088.1088", "start_pos": 1088, "end_pos": 1088, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P34228" }, { "database": "O-GlcNAc Atlas", "id": "P34228", "url": "https://oglcnac.org/atlas/detail/P34228" } ], "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": "P34228", "url": "https://oglcnac.org/atlas/detail/P34228", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PLSLFSKSNDINSNKTNQRF", "down_seq": "TGTNTVTSSNFQTIDNENNV", "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": "Ser1088", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P34228", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P34228" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P34228-1.1089.1089", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P34228-1.1091.1091", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P34228-1.1093.1093", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P34228-1.1095.1095", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P34228-1.1096.1096", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P34228-1.1097.1097", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P34228-1.1101.1101", "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": "P34228-1.1089.1089", "start_pos": 1089, "end_pos": 1089, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P34228" }, { "database": "O-GlcNAc Atlas", "id": "P34228", "url": "https://oglcnac.org/atlas/detail/P34228" } ], "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": "P34228", "url": "https://oglcnac.org/atlas/detail/P34228", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LSLFSKSNDINSNKTNQRFS", "down_seq": "GTNTVTSSNFQTIDNENNVK", "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": "Thr1089", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P34228", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P34228" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P34228-1.1088.1088", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P34228-1.1091.1091", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P34228-1.1093.1093", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P34228-1.1095.1095", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P34228-1.1096.1096", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P34228-1.1097.1097", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P34228-1.1101.1101", "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": "P34228-1.1091.1091", "start_pos": 1091, "end_pos": 1091, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P34228" }, { "database": "O-GlcNAc Atlas", "id": "P34228", "url": "https://oglcnac.org/atlas/detail/P34228" } ], "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": "P34228", "url": "https://oglcnac.org/atlas/detail/P34228", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LFSKSNDINSNKTNQRFSTG", "down_seq": "NTVTSSNFQTIDNENNVKTP", "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": "Thr1091", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P34228", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P34228" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P34228-1.1088.1088", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P34228-1.1089.1089", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P34228-1.1093.1093", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P34228-1.1095.1095", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P34228-1.1096.1096", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P34228-1.1097.1097", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P34228-1.1101.1101", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P34228-1.1110.1110", "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": "P34228-1.1093.1093", "start_pos": 1093, "end_pos": 1093, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P34228" }, { "database": "O-GlcNAc Atlas", "id": "P34228", "url": "https://oglcnac.org/atlas/detail/P34228" } ], "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": "P34228", "url": "https://oglcnac.org/atlas/detail/P34228", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SKSNDINSNKTNQRFSTGTN", "down_seq": "VTSSNFQTIDNENNVKTPGN", "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": "Thr1093", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P34228", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P34228" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P34228-1.1088.1088", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P34228-1.1089.1089", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P34228-1.1091.1091", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P34228-1.1095.1095", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P34228-1.1096.1096", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P34228-1.1097.1097", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P34228-1.1101.1101", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P34228-1.1110.1110", "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": "P34228-1.1095.1095", "start_pos": 1095, "end_pos": 1095, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P34228" }, { "database": "O-GlcNAc Atlas", "id": "P34228", "url": "https://oglcnac.org/atlas/detail/P34228" } ], "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": "P34228", "url": "https://oglcnac.org/atlas/detail/P34228", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SNDINSNKTNQRFSTGTNTV", "down_seq": "SSNFQTIDNENNVKTPGNKL", "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": "Thr1095", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P34228", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P34228" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P34228-1.1088.1088", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P34228-1.1089.1089", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P34228-1.1091.1091", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P34228-1.1093.1093", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P34228-1.1096.1096", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P34228-1.1097.1097", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P34228-1.1101.1101", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P34228-1.1110.1110", "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": "P34228-1.1096.1096", "start_pos": 1096, "end_pos": 1096, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P34228" }, { "database": "O-GlcNAc Atlas", "id": "P34228", "url": "https://oglcnac.org/atlas/detail/P34228" } ], "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": "P34228", "url": "https://oglcnac.org/atlas/detail/P34228", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NDINSNKTNQRFSTGTNTVT", "down_seq": "SNFQTIDNENNVKTPGNKLT", "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": "Ser1096", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P34228", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P34228" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P34228-1.1088.1088", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P34228-1.1089.1089", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P34228-1.1091.1091", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P34228-1.1093.1093", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P34228-1.1095.1095", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P34228-1.1097.1097", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P34228-1.1101.1101", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P34228-1.1110.1110", "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": "P34228-1.1097.1097", "start_pos": 1097, "end_pos": 1097, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P34228" }, { "database": "O-GlcNAc Atlas", "id": "P34228", "url": "https://oglcnac.org/atlas/detail/P34228" } ], "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": "P34228", "url": "https://oglcnac.org/atlas/detail/P34228", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DINSNKTNQRFSTGTNTVTS", "down_seq": "NFQTIDNENNVKTPGNKLTD", "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": "Ser1097", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P34228", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P34228" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P34228-1.1088.1088", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P34228-1.1089.1089", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P34228-1.1091.1091", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P34228-1.1093.1093", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P34228-1.1095.1095", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P34228-1.1096.1096", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P34228-1.1101.1101", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P34228-1.1110.1110", "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": "P34228-1.149.149", "start_pos": 149, "end_pos": 149, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "LQQIPMGNSLLNKLNLHPTP", "down_seq": "PGTIIPNPDSSPSSGSPTSS", "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": "Thr149", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "upstream", "id": "P34228-1.160.160", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P34228-1.162.162", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P34228-1.163.163", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P34228-1.165.165", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P34228-1.167.167", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P34228-1.168.168", "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": "P34228-1.992.992", "start_pos": 992, "end_pos": 992, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P34228" }, { "database": "O-GlcNAc Atlas", "id": "P34228", "url": "https://oglcnac.org/atlas/detail/P34228" } ], "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": "P34228", "url": "https://oglcnac.org/atlas/detail/P34228", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PVNHFPASVPGLRNHPVGNL", "down_seq": "NNVTLGIDHPIPREHSNLQN", "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": "Ser992", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P34228", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P34228" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "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": "P34228-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P34228" }, { "database": "O-GlcNAc Atlas", "id": "P34228", "url": "https://oglcnac.org/atlas/detail/P34228" } ], "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": "P34228", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P34228", "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": "P34228", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P34228" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "P34228-1.8.8", "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": "P34228-1.1053.1053", "start_pos": 1053, "end_pos": 1053, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "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": "SMSHSRTPIASKSNNMTDLH", "down_seq": "VVSDPGSSKSTAYPPLSLFS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser1053" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P34228-1.1045.1045", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P34228-1.1056.1056", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P34228-1.1060.1060", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P34228-1.1061.1061", "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": "P34228-1.1056.1056", "start_pos": 1056, "end_pos": 1056, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "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": "HSRTPIASKSNNMTDLHSVV", "down_seq": "DPGSSKSTAYPPLSLFSKSN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1056" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P34228-1.1045.1045", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P34228-1.1053.1053", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P34228-1.1060.1060", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P34228-1.1061.1061", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34228-1.1101.1101", "start_pos": 1101, "end_pos": 1101, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "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": "NKTNQRFSTGTNTVTSSNFQ", "down_seq": "IDNENNVKTPGNKLTDFFQQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1101" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P34228-1.1088.1088", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P34228-1.1089.1089", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P34228-1.1091.1091", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P34228-1.1093.1093", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P34228-1.1095.1095", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P34228-1.1096.1096", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P34228-1.1097.1097", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P34228-1.1110.1110", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34228-1.1110.1110", "start_pos": 1110, "end_pos": 1110, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "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": "GTNTVTSSNFQTIDNENNVK", "down_seq": "PGNKLTDFFQQQSAGWIEGN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1110" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P34228-1.1091.1091", "categories": [ "glycosylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P34228-1.1093.1093", "categories": [ "glycosylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P34228-1.1095.1095", "categories": [ "glycosylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P34228-1.1096.1096", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P34228-1.1097.1097", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P34228-1.1101.1101", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34228-1.160.160", "start_pos": 160, "end_pos": 160, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "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": "NKLNLHPTPTPGTIIPNPDS", "down_seq": "PSSGSPTSSAAQRDSKVSVQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser160" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P34228-1.149.149", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P34228-1.162.162", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P34228-1.163.163", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P34228-1.165.165", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P34228-1.167.167", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P34228-1.168.168", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34228-1.162.162", "start_pos": 162, "end_pos": 162, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "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": "LNLHPTPTPGTIIPNPDSSP", "down_seq": "SGSPTSSAAQRDSKVSVQTY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "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": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P34228-1.149.149", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P34228-1.160.160", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P34228-1.163.163", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P34228-1.165.165", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P34228-1.167.167", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P34228-1.168.168", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34228-1.163.163", "start_pos": 163, "end_pos": 163, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "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": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NLHPTPTPGTIIPNPDSSPS", "down_seq": "GSPTSSAAQRDSKVSVQTYL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "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": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" } ], "site_lbl": "Ser163" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P34228-1.149.149", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P34228-1.160.160", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P34228-1.162.162", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P34228-1.165.165", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P34228-1.167.167", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P34228-1.168.168", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34228-1.165.165", "start_pos": 165, "end_pos": 165, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "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": "HPTPTPGTIIPNPDSSPSSG", "down_seq": "PTSSAAQRDSKVSVQTYLSR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "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": "Ser165" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P34228-1.149.149", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P34228-1.160.160", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P34228-1.162.162", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P34228-1.163.163", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P34228-1.167.167", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P34228-1.168.168", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34228-1.167.167", "start_pos": 167, "end_pos": 167, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "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": "TPTPGTIIPNPDSSPSSGSP", "down_seq": "SSAAQRDSKVSVQTYLSREP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr167" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P34228-1.149.149", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P34228-1.160.160", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P34228-1.162.162", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P34228-1.163.163", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P34228-1.165.165", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P34228-1.168.168", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34228-1.168.168", "start_pos": 168, "end_pos": 168, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "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": "PTPGTIIPNPDSSPSSGSPT", "down_seq": "SAAQRDSKVSVQTYLSREPQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser168" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P34228-1.149.149", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P34228-1.160.160", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P34228-1.162.162", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P34228-1.163.163", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P34228-1.165.165", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P34228-1.167.167", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34228-1.217.217", "start_pos": 217, "end_pos": 217, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "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": "NTNKFKANNEASSHMTLRAS", "down_seq": "LAQDSKGLVATEPNKLPPLL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser217" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "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": "P34228-1.263.263", "start_pos": 263, "end_pos": 263, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "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": "PNNSKESLPPALQMAFYKNN", "down_seq": "AGNTPNGPFSPIQKTYSPHT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "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": "Ser263" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P34228-1.267.267", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P34228-1.273.273", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34228-1.267.267", "start_pos": 267, "end_pos": 267, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "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": "KESLPPALQMAFYKNNSAGN", "down_seq": "PNGPFSPIQKTYSPHTTSTT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr267" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P34228-1.263.263", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P34228-1.273.273", "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": "P34228-1.273.273", "start_pos": 273, "end_pos": 273, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "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": "ALQMAFYKNNSAGNTPNGPF", "down_seq": "PIQKTYSPHTTSTTVTTTTN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "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": "Ser273" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P34228-1.263.263", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P34228-1.267.267", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34228-1.328.328", "start_pos": 328, "end_pos": 328, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NADRTKTPVVATTTTMPLLP", "down_seq": "PHANVDEFVLGDISISIEKA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" } ], "site_lbl": "Ser328" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "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": "P34228-1.526.526", "start_pos": 526, "end_pos": 526, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "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": "PPTSQTDYLLEKALSCGDEE", "down_seq": "EEDNNDSIDNNNNDKRNKKD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser526" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "P34228-1.533.533", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34228-1.533.533", "start_pos": 533, "end_pos": 533, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "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": "YLLEKALSCGDEESEEDNND", "down_seq": "IDNNNNDKRNKKDEPHVESK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser533" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P34228-1.526.526", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34228-1.695.695", "start_pos": 695, "end_pos": 695, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "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": "PIYIRQAATFSALILFKLQL", "down_seq": "PLLPDKYFDSARQSVVTIHR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr695" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "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": "P34228-1.806.806", "start_pos": 806, "end_pos": 806, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "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": "EMDPEYNKQALEKAAKKRKF", "down_seq": "SNGIYNGTSSTGGITDRKLY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser806" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P34228-1.811.811", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34228-1.811.811", "start_pos": 811, "end_pos": 811, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "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": "YNKQALEKAAKKRKFSSNGI", "down_seq": "NGTSSTGGITDRKLYPLPLY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr811" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P34228-1.806.806", "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": "P34228-1.845.845", "start_pos": 845, "end_pos": 845, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LYPLPLYNHISRDDFETVTK", "down_seq": "TPSGTTVTTLVPTKNALKQA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" } ], "site_lbl": "Thr845" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P34228-1.846.846", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P34228-1.848.848", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P34228-1.850.850", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P34228-1.853.853", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P34228-1.854.854", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P34228-1.858.858", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34228-1.846.846", "start_pos": 846, "end_pos": 846, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "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": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "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": "T", "start_aa": "T", "up_seq": "YPLPLYNHISRDDFETVTKT", "down_seq": "PSGTTVTTLVPTKNALKQAE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "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": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "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": "Thr846" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P34228-1.845.845", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P34228-1.848.848", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P34228-1.850.850", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P34228-1.853.853", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P34228-1.854.854", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P34228-1.858.858", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34228-1.848.848", "start_pos": 848, "end_pos": 848, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "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": "S", "start_aa": "S", "up_seq": "LPLYNHISRDDFETVTKTTP", "down_seq": "GTTVTTLVPTKNALKQAEKL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser848" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P34228-1.845.845", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P34228-1.846.846", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P34228-1.850.850", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P34228-1.853.853", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P34228-1.854.854", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P34228-1.858.858", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34228-1.850.850", "start_pos": 850, "end_pos": 850, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "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": "LYNHISRDDFETVTKTTPSG", "down_seq": "TVTTLVPTKNALKQAEKLAK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr850" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P34228-1.845.845", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P34228-1.846.846", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P34228-1.848.848", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P34228-1.853.853", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P34228-1.854.854", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P34228-1.858.858", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34228-1.853.853", "start_pos": 853, "end_pos": 853, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "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": "HISRDDFETVTKTTPSGTTV", "down_seq": "TLVPTKNALKQAEKLAKTNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr853" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P34228-1.845.845", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P34228-1.846.846", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P34228-1.848.848", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P34228-1.850.850", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P34228-1.854.854", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P34228-1.858.858", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34228-1.854.854", "start_pos": 854, "end_pos": 854, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "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": "ISRDDFETVTKTTPSGTTVT", "down_seq": "LVPTKNALKQAEKLAKTNNG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr854" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P34228-1.845.845", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P34228-1.846.846", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P34228-1.848.848", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P34228-1.850.850", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P34228-1.853.853", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P34228-1.858.858", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34228-1.858.858", "start_pos": 858, "end_pos": 858, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "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": "DFETVTKTTPSGTTVTTLVP", "down_seq": "KNALKQAEKLAKTNNGDSDG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr858" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P34228-1.845.845", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P34228-1.846.846", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P34228-1.848.848", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P34228-1.850.850", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P34228-1.853.853", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P34228-1.854.854", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34228-1.8.8", "start_pos": 8, "end_pos": 8, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "SUMO is a pervasive regulator of meiosis.", "journal": "eLife", "date": "2021-01-27", "authors": "Bhagwat Nikhil R, Owens Shannon N, Ito Masaru, Boinapalli Jay V, Poa Philip, Ditzel Alexander, Kopparapu Srujan, Mahalawat Meghan, Davies Owen Richard, Collins Sean R, Johnson Jeffrey R, Krogan Nevan J, Hunter Neil", "evidence": [ { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ] } ], "crossref": [ { "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "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" ] }, { "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MVKDNRD", "down_seq": "DQDQDFSSAHMKRQPEQQQL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "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": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ], "site_lbl": "Ser8" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P34228-1.0.0", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34228-1.968.968", "start_pos": 968, "end_pos": 968, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "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": "TKVDYYSNGPSVIPDLSMKR", "down_seq": "VSTPVNHFPASVPGLRNHPV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Ser968" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P34228-1.970.970", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P34228-1.971.971", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34228-1.970.970", "start_pos": 970, "end_pos": 970, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "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": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "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": "VDYYSNGPSVIPDLSMKRSV", "down_seq": "TPVNHFPASVPGLRNHPVGN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "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": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "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": "Ser970" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P34228-1.968.968", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P34228-1.971.971", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34228-1.971.971", "start_pos": 971, "end_pos": 971, "uniprot_canonical_ac": "P34228-1", "length": 1148, "uniprot_id": "SEF1_YEAST", "protein_name": "Putative transcription factor SEF1", "refseq_ac": "NP_009487", "refseq_name": "Sef1p", "gene_name": "SEF1", "gene_names_uniprotkb": "SEF1; YBL0501; YBL0526", "gene_names_refseq": "SEF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" } ], "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": "P34228", "url": "https://www.uniprot.org/uniprotkb/P34228" }, { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "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": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162", "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": "DYYSNGPSVIPDLSMKRSVS", "down_seq": "PVNHFPASVPGLRNHPVGNL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P34228", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34228" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000162", "url": "https://www.yeastgenome.org/locus/S000000162" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr971" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1095", "end_pos": "1095" }, { "start_pos": "1096", "end_pos": "1096" }, { "start_pos": "1097", "end_pos": "1097" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "992", "end_pos": "992" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "811", "end_pos": "811" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "848", "end_pos": "848" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "854", "end_pos": "854" }, { "start_pos": "858", "end_pos": "858" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P34228-1.968.968", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P34228-1.970.970", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34231-1.115.115", "start_pos": 115, "end_pos": 115, "uniprot_canonical_ac": "P34231-1", "length": 750, "uniprot_id": "YKS7_YEAST", "protein_name": "Uncharacterized protein YKL187C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "KNIADTPALTPLLTLLSNAD", "down_seq": "TTVTIESLTELAPLAISGNP", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn115", "evidence": [ { "id": "P34231", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P34231#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "714", "end_pos": "714" }, { "start_pos": "724", "end_pos": "724" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "675", "end_pos": "675" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "729", "end_pos": "729" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P34231-1.154.154", "start_pos": 154, "end_pos": 154, "uniprot_canonical_ac": "P34231-1", "length": 750, "uniprot_id": "YKS7_YEAST", "protein_name": "Uncharacterized protein YKL187C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "NPASSTRQLTEINGLLKYSD", "down_seq": "ATETLDGLSRLVSASLSSAS", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn154", "evidence": [ { "id": "P34231", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P34231#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "714", "end_pos": "714" }, { "start_pos": "724", "end_pos": "724" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "675", "end_pos": "675" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "729", "end_pos": "729" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P34231-1.176.176", "start_pos": 176, "end_pos": 176, "uniprot_canonical_ac": "P34231-1", "length": 750, "uniprot_id": "YKS7_YEAST", "protein_name": "Uncharacterized protein YKL187C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "TETLDGLSRLVSASLSSASS", "down_seq": "SSSDSTTLVLDLLKDSDNPQ", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn176", "evidence": [ { "id": "P34231", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P34231#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "714", "end_pos": "714" }, { "start_pos": "724", "end_pos": "724" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "675", "end_pos": "675" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "729", "end_pos": "729" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P34231-1.197.197", "start_pos": 197, "end_pos": 197, "uniprot_canonical_ac": "P34231-1", "length": 750, "uniprot_id": "YKS7_YEAST", "protein_name": "Uncharacterized protein YKL187C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "SSSDSTTLVLDLLKDSDNPQ", "down_seq": "STDALLTLNNLTMSEKAQLL", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn197", "evidence": [ { "id": "P34231", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P34231#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "714", "end_pos": "714" }, { "start_pos": "724", "end_pos": "724" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "675", "end_pos": "675" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "729", "end_pos": "729" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "upstream", "id": "P34231-1.207.207", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P34231-1.207.207", "start_pos": 207, "end_pos": 207, "uniprot_canonical_ac": "P34231-1", "length": 750, "uniprot_id": "YKS7_YEAST", "protein_name": "Uncharacterized protein YKL187C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "DLLKDSDNPQNSTDALLTLN", "down_seq": "LTMSEKAQLLPVFRLFAFST", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn207", "evidence": [ { "id": "P34231", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P34231#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "714", "end_pos": "714" }, { "start_pos": "724", "end_pos": "724" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "675", "end_pos": "675" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "729", "end_pos": "729" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P34231-1.197.197", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P34231-1.228.228", "start_pos": 228, "end_pos": 228, "uniprot_canonical_ac": "P34231-1", "length": 750, "uniprot_id": "YKS7_YEAST", "protein_name": "Uncharacterized protein YKL187C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "LTMSEKAQLLPVFRLFAFST", "down_seq": "QTATMTALATLMNTTISSSL", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn228", "evidence": [ { "id": "P34231", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P34231#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "714", "end_pos": "714" }, { "start_pos": "724", "end_pos": "724" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "675", "end_pos": "675" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "729", "end_pos": "729" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "upstream", "id": "P34231-1.241.241", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P34231-1.241.241", "start_pos": 241, "end_pos": 241, "uniprot_canonical_ac": "P34231-1", "length": 750, "uniprot_id": "YKS7_YEAST", "protein_name": "Uncharacterized protein YKL187C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "RLFAFSTNQTATMTALATLM", "down_seq": "TTISSSLAQTLLTQLQNTIS", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn241", "evidence": [ { "id": "P34231", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P34231#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "714", "end_pos": "714" }, { "start_pos": "724", "end_pos": "724" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "675", "end_pos": "675" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "729", "end_pos": "729" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P34231-1.228.228", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P34231-1.267.267", "start_pos": 267, "end_pos": 267, "uniprot_canonical_ac": "P34231-1", "length": 750, "uniprot_id": "YKS7_YEAST", "protein_name": "Uncharacterized protein YKL187C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "SLAQTLLTQLQNTISNGGSL", "down_seq": "NTFSTLQPLVPQASAPAFDA", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn267", "evidence": [ { "id": "P34231", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P34231#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "714", "end_pos": "714" }, { "start_pos": "724", "end_pos": "724" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "675", "end_pos": "675" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "729", "end_pos": "729" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P34231-1.293.293", "start_pos": 293, "end_pos": 293, "uniprot_canonical_ac": "P34231-1", "length": 750, "uniprot_id": "YKS7_YEAST", "protein_name": "Uncharacterized protein YKL187C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "LQPLVPQASAPAFDAVELLL", "down_seq": "QTTSTNQTLSTLSDLLEQNL", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn293", "evidence": [ { "id": "P34231", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P34231#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "714", "end_pos": "714" }, { "start_pos": "724", "end_pos": "724" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "675", "end_pos": "675" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "729", "end_pos": "729" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P34231-1.299.299", "categories": [ "glycosylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P34231-1.312.312", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P34231-1.299.299", "start_pos": 299, "end_pos": 299, "uniprot_canonical_ac": "P34231-1", "length": 750, "uniprot_id": "YKS7_YEAST", "protein_name": "Uncharacterized protein YKL187C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "QASAPAFDAVELLLNQTTST", "down_seq": "QTLSTLSDLLEQNLTQSSSA", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn299", "evidence": [ { "id": "P34231", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P34231#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "714", "end_pos": "714" }, { "start_pos": "724", "end_pos": "724" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "675", "end_pos": "675" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "729", "end_pos": "729" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P34231-1.293.293", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P34231-1.312.312", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P34231-1.312.312", "start_pos": 312, "end_pos": 312, "uniprot_canonical_ac": "P34231-1", "length": 750, "uniprot_id": "YKS7_YEAST", "protein_name": "Uncharacterized protein YKL187C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "LNQTTSTNQTLSTLSDLLEQ", "down_seq": "LTQSSSAKKAFAALTQLMEN", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn312", "evidence": [ { "id": "P34231", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P34231#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "714", "end_pos": "714" }, { "start_pos": "724", "end_pos": "724" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "675", "end_pos": "675" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "729", "end_pos": "729" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P34231-1.293.293", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P34231-1.299.299", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P34231-1.335.335", "start_pos": 335, "end_pos": 335, "uniprot_canonical_ac": "P34231-1", "length": 750, "uniprot_id": "YKS7_YEAST", "protein_name": "Uncharacterized protein YKL187C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "QSSSAKKAFAALTQLMENSD", "down_seq": "STMVVTSVQSLAAVTNTTQS", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn335", "evidence": [ { "id": "P34231", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P34231#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "714", "end_pos": "714" }, { "start_pos": "724", "end_pos": "724" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "675", "end_pos": "675" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "729", "end_pos": "729" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "upstream", "id": "P34231-1.351.351", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P34231-1.351.351", "start_pos": 351, "end_pos": 351, "uniprot_canonical_ac": "P34231-1", "length": 750, "uniprot_id": "YKS7_YEAST", "protein_name": "Uncharacterized protein YKL187C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "ENSDNSTMVVTSVQSLAAVT", "down_seq": "TTQSTQQLIGLDDVISSSSN", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn351", "evidence": [ { "id": "P34231", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P34231#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "714", "end_pos": "714" }, { "start_pos": "724", "end_pos": "724" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "675", "end_pos": "675" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "729", "end_pos": "729" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P34231-1.335.335", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P34231-1.373.373", "start_pos": 373, "end_pos": 373, "uniprot_canonical_ac": "P34231-1", "length": 750, "uniprot_id": "YKS7_YEAST", "protein_name": "Uncharacterized protein YKL187C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "TQSTQQLIGLDDVISSSSNT", "down_seq": "ETLSILSELQSGLSGNSSSV", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn373", "evidence": [ { "id": "P34231", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P34231#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "714", "end_pos": "714" }, { "start_pos": "724", "end_pos": "724" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "675", "end_pos": "675" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "729", "end_pos": "729" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "upstream", "id": "P34231-1.389.389", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P34231-1.389.389", "start_pos": 389, "end_pos": 389, "uniprot_canonical_ac": "P34231-1", "length": 750, "uniprot_id": "YKS7_YEAST", "protein_name": "Uncharacterized protein YKL187C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "SSNTNETLSILSELQSGLSG", "down_seq": "SSSVQYIPYLFSLLGASTDP", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn389", "evidence": [ { "id": "P34231", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P34231#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "714", "end_pos": "714" }, { "start_pos": "724", "end_pos": "724" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "675", "end_pos": "675" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "729", "end_pos": "729" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P34231-1.373.373", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P34231-1.519.519", "start_pos": 519, "end_pos": 519, "uniprot_canonical_ac": "P34231-1", "length": 750, "uniprot_id": "YKS7_YEAST", "protein_name": "Uncharacterized protein YKL187C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "RSIIYDALVTSDFQPYLNAL", "down_seq": "ISANDLYLEGKLLHREHQYV", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn519", "evidence": [ { "id": "P34231", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P34231#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "714", "end_pos": "714" }, { "start_pos": "724", "end_pos": "724" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "675", "end_pos": "675" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "729", "end_pos": "729" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P34231-1.61.61", "start_pos": 61, "end_pos": 61, "uniprot_canonical_ac": "P34231-1", "length": 750, "uniprot_id": "YKS7_YEAST", "protein_name": "Uncharacterized protein YKL187C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "TANYKPLTNIYIGEADIKHI", "down_seq": "VSKVIPQIGPILTILGSALT", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn61", "evidence": [ { "id": "P34231", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P34231#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "714", "end_pos": "714" }, { "start_pos": "724", "end_pos": "724" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "675", "end_pos": "675" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "729", "end_pos": "729" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P34231-1.709.709", "start_pos": 709, "end_pos": 709, "uniprot_canonical_ac": "P34231-1", "length": 750, "uniprot_id": "YKS7_YEAST", "protein_name": "Uncharacterized protein YKL187C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "DDDDADFEKQVNRNEITAID", "down_seq": "SSSANNTDVTGSTSNRTELS", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn709", "evidence": [ { "id": "P34231", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P34231#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "714", "end_pos": "714" }, { "start_pos": "724", "end_pos": "724" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "675", "end_pos": "675" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "729", "end_pos": "729" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P34231-1.714.714", "categories": [ "glycosylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P34231-1.724.724", "categories": [ "glycosylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P34231-1.729.729", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P34231-1.714.714", "start_pos": 714, "end_pos": 714, "uniprot_canonical_ac": "P34231-1", "length": 750, "uniprot_id": "YKS7_YEAST", "protein_name": "Uncharacterized protein YKL187C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "DFEKQVNRNEITAIDNSSSA", "down_seq": "NTDVTGSTSNRTELSHPDVT", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn714", "evidence": [ { "id": "P34231", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P34231#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "714", "end_pos": "714" }, { "start_pos": "724", "end_pos": "724" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "675", "end_pos": "675" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "729", "end_pos": "729" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P34231-1.709.709", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P34231-1.724.724", "categories": [ "glycosylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P34231-1.729.729", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P34231-1.724.724", "start_pos": 724, "end_pos": 724, "uniprot_canonical_ac": "P34231-1", "length": 750, "uniprot_id": "YKS7_YEAST", "protein_name": "Uncharacterized protein YKL187C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "ITAIDNSSSANNTDVTGSTS", "down_seq": "RTELSHPDVTPKDSNGPVNN", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn724", "evidence": [ { "id": "P34231", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P34231#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "714", "end_pos": "714" }, { "start_pos": "724", "end_pos": "724" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "675", "end_pos": "675" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "729", "end_pos": "729" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P34231-1.709.709", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P34231-1.714.714", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P34231-1.729.729", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P34231-1.84.84", "start_pos": 84, "end_pos": 84, "uniprot_canonical_ac": "P34231-1", "length": 750, "uniprot_id": "YKS7_YEAST", "protein_name": "Uncharacterized protein YKL187C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "KVIPQIGPILTILGSALTAP", "down_seq": "SSLDDIFGAMKNIADTPALT", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn84", "evidence": [ { "id": "P34231", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P34231#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "714", "end_pos": "714" }, { "start_pos": "724", "end_pos": "724" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "675", "end_pos": "675" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "729", "end_pos": "729" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P34231-1.675.675", "start_pos": 675, "end_pos": 675, "uniprot_canonical_ac": "P34231-1", "length": 750, "uniprot_id": "YKS7_YEAST", "protein_name": "Uncharacterized protein YKL187C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Profiling phosphoproteins of yeast mitochondria reveals a role of phosphorylation in assembly of the ATP synthase.", "journal": "Molecular & cellular proteomics : MCP", "date": "2007-11", "authors": "Reinders J\u00f6rg, Wagner Karina, Zahedi Rene P, Stojanovski Diana, Eyrich Beate, van der Laan Martin, Rehling Peter, Sickmann Albert, Pfanner Nikolaus, Meisinger Chris", "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" }, { "database": "iPTMnet", "id": "P34231", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34231" } ], "reference": [ { "type": "PubMed", "id": "17761666", "url": "https://glygen.org/publication/PubMed/17761666" } ] }, { "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": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" }, { "database": "iPTMnet", "id": "P34231", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34231" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17761666", "url": "https://glygen.org/publication/PubMed/17761666", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P34231", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34231", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001670", "url": "https://www.yeastgenome.org/locus/S000001670", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RYMSGSVTNRKGEIYTYGDG", "down_seq": "AISADRFGDHNLGDDDDADF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" }, { "database": "PubMed", "id": "17761666", "url": "https://glygen.org/publication/PubMed/17761666" }, { "database": "iPTMnet", "id": "P34231", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34231" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001670", "url": "https://www.yeastgenome.org/locus/S000001670" } ], "site_lbl": "Ser675" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "714", "end_pos": "714" }, { "start_pos": "724", "end_pos": "724" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "675", "end_pos": "675" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "729", "end_pos": "729" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P34231-1.678.678", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34231-1.678.678", "start_pos": 678, "end_pos": 678, "uniprot_canonical_ac": "P34231-1", "length": 750, "uniprot_id": "YKS7_YEAST", "protein_name": "Uncharacterized protein YKL187C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Profiling phosphoproteins of yeast mitochondria reveals a role of phosphorylation in assembly of the ATP synthase.", "journal": "Molecular & cellular proteomics : MCP", "date": "2007-11", "authors": "Reinders J\u00f6rg, Wagner Karina, Zahedi Rene P, Stojanovski Diana, Eyrich Beate, van der Laan Martin, Rehling Peter, Sickmann Albert, Pfanner Nikolaus, Meisinger Chris", "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" }, { "database": "iPTMnet", "id": "P34231", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34231" } ], "reference": [ { "type": "PubMed", "id": "17761666", "url": "https://glygen.org/publication/PubMed/17761666" } ] }, { "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": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" }, { "database": "iPTMnet", "id": "P34231", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34231" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17761666", "url": "https://glygen.org/publication/PubMed/17761666", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P34231", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34231", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000001670", "url": "https://www.yeastgenome.org/locus/S000001670", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SGSVTNRKGEIYTYGDGSAI", "down_seq": "ADRFGDHNLGDDDDADFEKQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" }, { "database": "PubMed", "id": "17761666", "url": "https://glygen.org/publication/PubMed/17761666" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P34231", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34231" }, { "database": "SGD", "id": "S000001670", "url": "https://www.yeastgenome.org/locus/S000001670" } ], "site_lbl": "Ser678" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "714", "end_pos": "714" }, { "start_pos": "724", "end_pos": "724" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "675", "end_pos": "675" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "729", "end_pos": "729" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P34231-1.675.675", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34231-1.729.729", "start_pos": 729, "end_pos": 729, "uniprot_canonical_ac": "P34231-1", "length": 750, "uniprot_id": "YKS7_YEAST", "protein_name": "Uncharacterized protein YKL187C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34231", "url": "https://www.uniprot.org/uniprotkb/P34231" } ], "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": "P34231", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34231" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001670", "url": "https://www.yeastgenome.org/locus/S000001670", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34231", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34231", "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": "NSSSANNTDVTGSTSNRTEL", "down_seq": "HPDVTPKDSNGPVNNNAHLV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001670", "url": "https://www.yeastgenome.org/locus/S000001670" }, { "database": "iPTMnet", "id": "P34231", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34231" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser729" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "714", "end_pos": "714" }, { "start_pos": "724", "end_pos": "724" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "675", "end_pos": "675" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "729", "end_pos": "729" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P34231-1.709.709", "categories": [ "glycosylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P34231-1.714.714", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P34231-1.724.724", "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": "P34248-1.236.236", "start_pos": 236, "end_pos": 236, "uniprot_canonical_ac": "P34248-1", "length": 587, "uniprot_id": "SPP_YEAST", "protein_name": "Intramembrane protease YPF1", "refseq_ac": "", "refseq_name": "", "gene_name": "YPF1", "gene_names_uniprotkb": "YPF1; YKL450", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34248", "url": "https://www.uniprot.org/uniprotkb/P34248" } ], "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": "RNLSHLASWNPLVVLPRYRV", "down_seq": "IADDNEDLNKIGGFVTNLNY", "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": "Thr236", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "236", "end_pos": "236" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "411", "end_pos": "411" } ] } ], "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": 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": "P34248-1.411.411", "start_pos": 411, "end_pos": 411, "uniprot_canonical_ac": "P34248-1", "length": 587, "uniprot_id": "SPP_YEAST", "protein_name": "Intramembrane protease YPF1", "refseq_ac": "", "refseq_name": "", "gene_name": "YPF1", "gene_names_uniprotkb": "YPF1; YKL450", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34248", "url": "https://www.uniprot.org/uniprotkb/P34248" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The yeast ER-intramembrane protease Ypf1 refines nutrient sensing by regulating transporter abundance.", "journal": "Molecular cell", "date": "2014-12-04", "authors": "Avci D\u00f6nem, Fuchs Shai, Schrul Bianca, Fukumori Akio, Breker Michal, Frumkin Idan, Chen Chia-Yi, Biniossek Martin L, Kremmer Elisabeth, Schilling Oliver, Steiner Harald, Schuldiner Maya, Lemberg Marius K", "evidence": [ { "database": "UniProtKB", "id": "P34248", "url": "https://www.uniprot.org/uniprotkb/P34248" } ], "reference": [ { "type": "PubMed", "id": "25454947", "url": "https://glygen.org/publication/PubMed/25454947" } ] } ], "crossref": [ { "id": "P34248", "url": "https://www.uniprot.org/uniprotkb/P34248", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "25454947", "url": "https://glygen.org/publication/PubMed/25454947", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "LPVKFNTAQNNFNFSILGLG", "down_seq": "IALPGMFIAMCYKYDIWKWH", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Loss of activity.", "evidence": [ { "database": "UniProtKB", "id": "P34248", "url": "https://www.uniprot.org/uniprotkb/P34248" }, { "database": "PubMed", "id": "25454947", "url": "https://glygen.org/publication/PubMed/25454947" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "236", "end_pos": "236" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "411", "end_pos": "411" } ] } ], "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": "P34250-1.866.866", "start_pos": 866, "end_pos": 866, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P34250" }, { "database": "O-GlcNAc Atlas", "id": "P34250", "url": "https://oglcnac.org/atlas/detail/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "https://oglcnac.org/atlas/detail/P34250", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "NIVYPASDSSSSPPYHSKKP", "down_seq": "NPPSSGNLASHEASKCFPKA", "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": "Ser866", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P34250", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P34250" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser866" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P34250-1.852.852", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P34250-1.855.855", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P34250-1.856.856", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P34250-1.860.860", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P34250-1.870.870", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P34250-1.871.871", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P34250-1.876.876", "categories": [ "glycosylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P34250-1.880.880", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.870.870", "start_pos": 870, "end_pos": 870, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P34250" }, { "database": "O-GlcNAc Atlas", "id": "P34250", "url": "https://oglcnac.org/atlas/detail/P34250" } ], "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": "P34250", "url": "https://oglcnac.org/atlas/detail/P34250", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PASDSSSSPPYHSKKPSNPP", "down_seq": "SGNLASHEASKCFPKAPQAS", "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": "Ser870", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P34250", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P34250" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P34250-1.852.852", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P34250-1.855.855", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P34250-1.856.856", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P34250-1.860.860", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P34250-1.866.866", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P34250-1.871.871", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P34250-1.876.876", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P34250-1.880.880", "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": "P34250-1.871.871", "start_pos": 871, "end_pos": 871, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P34250" }, { "database": "O-GlcNAc Atlas", "id": "P34250", "url": "https://oglcnac.org/atlas/detail/P34250" } ], "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": "P34250", "url": "https://oglcnac.org/atlas/detail/P34250", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ASDSSSSPPYHSKKPSNPPS", "down_seq": "GNLASHEASKCFPKAPQAST", "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": "Ser871", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P34250", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P34250" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P34250-1.852.852", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P34250-1.855.855", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P34250-1.856.856", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P34250-1.860.860", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P34250-1.866.866", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P34250-1.870.870", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P34250-1.876.876", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P34250-1.880.880", "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": "P34250-1.876.876", "start_pos": 876, "end_pos": 876, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P34250" }, { "database": "O-GlcNAc Atlas", "id": "P34250", "url": "https://oglcnac.org/atlas/detail/P34250" } ], "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": "P34250", "url": "https://oglcnac.org/atlas/detail/P34250", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSPPYHSKKPSNPPSSGNLA", "down_seq": "HEASKCFPKAPQASTTSRRL", "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": "Ser876", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P34250", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P34250" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P34250-1.856.856", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P34250-1.860.860", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P34250-1.866.866", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P34250-1.870.870", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P34250-1.871.871", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P34250-1.880.880", "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": "P34250-1.880.880", "start_pos": 880, "end_pos": 880, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P34250" }, { "database": "O-GlcNAc Atlas", "id": "P34250", "url": "https://oglcnac.org/atlas/detail/P34250" } ], "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": "P34250", "url": "https://oglcnac.org/atlas/detail/P34250", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YHSKKPSNPPSSGNLASHEA", "down_seq": "KCFPKAPQASTTSRRLPDHV", "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": "Ser880", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P34250", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P34250" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P34250-1.860.860", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P34250-1.866.866", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P34250-1.870.870", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P34250-1.871.871", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P34250-1.876.876", "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": "P34250-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P34250" }, { "database": "O-GlcNAc Atlas", "id": "P34250", "url": "https://oglcnac.org/atlas/detail/P34250" } ], "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": "P34250", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P34250", "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": "P34250", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P34250" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "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": "P34250-1.1022.1022", "start_pos": 1022, "end_pos": 1022, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MTNFKNKTNENDMPILANKK", "down_seq": "CNNDDSSPYTASSMNTNDVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "site_lbl": "Ser1022" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "upstream", "id": "P34250-1.1034.1034", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P34250-1.1035.1035", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P34250-1.1038.1038", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.1034.1034", "start_pos": 1034, "end_pos": 1034, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "MPILANKKSCNNDDSSPYTA", "down_seq": "SMNTNDVSEAGTEGHRFSLF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser1034" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P34250-1.1022.1022", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P34250-1.1035.1035", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P34250-1.1038.1038", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P34250-1.1052.1052", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.1035.1035", "start_pos": 1035, "end_pos": 1035, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "PILANKKSCNNDDSSPYTAS", "down_seq": "MNTNDVSEAGTEGHRFSLFG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser1035" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P34250-1.1022.1022", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P34250-1.1034.1034", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P34250-1.1038.1038", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P34250-1.1052.1052", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.1038.1038", "start_pos": 1038, "end_pos": 1038, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "ANKKSCNNDDSSPYTASSMN", "down_seq": "NDVSEAGTEGHRFSLFGNKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr1038" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P34250-1.1022.1022", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P34250-1.1034.1034", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P34250-1.1035.1035", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P34250-1.1052.1052", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P34250-1.1058.1058", "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": "P34250-1.1052.1052", "start_pos": 1052, "end_pos": 1052, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "TASSMNTNDVSEAGTEGHRF", "down_seq": "LFGNKSQLSNRNISGGTATL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1052" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P34250-1.1034.1034", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P34250-1.1035.1035", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P34250-1.1038.1038", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P34250-1.1058.1058", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P34250-1.1061.1061", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P34250-1.1071.1071", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.1058.1058", "start_pos": 1058, "end_pos": 1058, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] } ], "crossref": [ { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "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" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TNDVSEAGTEGHRFSLFGNK", "down_seq": "QLSNRNISGGTATLESSNPD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ], "site_lbl": "Ser1058" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P34250-1.1038.1038", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P34250-1.1052.1052", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P34250-1.1061.1061", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P34250-1.1071.1071", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P34250-1.1075.1075", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34250-1.1061.1061", "start_pos": 1061, "end_pos": 1061, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] } ], "crossref": [ { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "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" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VSEAGTEGHRFSLFGNKSQL", "down_seq": "NRNISGGTATLESSNPDLPT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ], "site_lbl": "Ser1061" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P34250-1.1052.1052", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P34250-1.1058.1058", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P34250-1.1071.1071", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P34250-1.1075.1075", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34250-1.1071.1071", "start_pos": 1071, "end_pos": 1071, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "FSLFGNKSQLSNRNISGGTA", "down_seq": "LESSNPDLPTALPLSVPVTI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr1071" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P34250-1.1052.1052", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P34250-1.1058.1058", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P34250-1.1061.1061", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P34250-1.1075.1075", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.1075.1075", "start_pos": 1075, "end_pos": 1075, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "GNKSQLSNRNISGGTATLES", "down_seq": "NPDLPTALPLSVPVTIIDKN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1075" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P34250-1.1058.1058", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P34250-1.1061.1061", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P34250-1.1071.1071", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34250-1.131.131", "start_pos": 131, "end_pos": 131, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "EFGGKQSSKVLNISSSTGQN", "down_seq": "KSRTTSLGNSGSTIRTIKKY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Ser131" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P34250-1.133.133", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P34250-1.135.135", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P34250-1.136.136", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P34250-1.137.137", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.133.133", "start_pos": 133, "end_pos": 133, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "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": "GGKQSSKVLNISSSTGQNSK", "down_seq": "RTTSLGNSGSTIRTIKKYIP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser133" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P34250-1.131.131", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P34250-1.135.135", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P34250-1.136.136", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P34250-1.137.137", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34250-1.135.135", "start_pos": 135, "end_pos": 135, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "KQSSKVLNISSSTGQNSKSR", "down_seq": "TSLGNSGSTIRTIKKYIPGP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr135" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P34250-1.131.131", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P34250-1.133.133", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P34250-1.136.136", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P34250-1.137.137", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.136.136", "start_pos": 136, "end_pos": 136, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "T", "start_aa": "T", "up_seq": "QSSKVLNISSSTGQNSKSRT", "down_seq": "SLGNSGSTIRTIKKYIPGPR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Thr136" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P34250-1.131.131", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P34250-1.133.133", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P34250-1.135.135", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P34250-1.137.137", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34250-1.137.137", "start_pos": 137, "end_pos": 137, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "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": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "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": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "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": "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": "SSKVLNISSSTGQNSKSRTT", "down_seq": "LGNSGSTIRTIKKYIPGPRG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "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": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "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": "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": "Ser137" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P34250-1.131.131", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P34250-1.133.133", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P34250-1.135.135", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P34250-1.136.136", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34250-1.172.172", "start_pos": 172, "end_pos": 172, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "IPGPRGLMAVEVPVEVEPPR", "down_seq": "SLSNRSNQRGGRAYSLPTRN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ], "site_lbl": "Tyr172" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P34250-1.173.173", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P34250-1.175.175", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P34250-1.187.187", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.173.173", "start_pos": 173, "end_pos": 173, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "PGPRGLMAVEVPVEVEPPRY", "down_seq": "LSNRSNQRGGRAYSLPTRNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser173" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P34250-1.172.172", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P34250-1.175.175", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P34250-1.187.187", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.175.175", "start_pos": 175, "end_pos": 175, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "PRGLMAVEVPVEVEPPRYSL", "down_seq": "NRSNQRGGRAYSLPTRNNKT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser175" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P34250-1.172.172", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P34250-1.173.173", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P34250-1.187.187", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.187.187", "start_pos": 187, "end_pos": 187, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "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": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "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": "VEPPRYSLSNRSNQRGGRAY", "down_seq": "LPTRNNKTSLMHRNKTTKKA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "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": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "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": "Ser187" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P34250-1.172.172", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P34250-1.173.173", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P34250-1.175.175", "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": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.234.234", "start_pos": 234, "end_pos": 234, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "SESGGKSKNDYHGKVLSKMH", "down_seq": "TSLKQRHNNVPLIPTTMNEE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr234" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P34250-1.236.236", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.236.236", "start_pos": 236, "end_pos": 236, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "SGGKSKNDYHGKVLSKMHTT", "down_seq": "LKQRHNNVPLIPTTMNEETE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser236" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P34250-1.234.234", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.275.275", "start_pos": 275, "end_pos": 275, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "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": "TEQELQEDLHDPLEFKPMII", "down_seq": "DDENSFIEPSVLDRSIPKKD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser275" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P34250-1.280.280", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34250-1.280.280", "start_pos": 280, "end_pos": 280, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "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": "QEDLHDPLEFKPMIISDDEN", "down_seq": "FIEPSVLDRSIPKKDKSGLS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser280" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P34250-1.275.275", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34250-1.317.317", "start_pos": 317, "end_pos": 317, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "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": "SGLSGREKKEEIETLLKEVH", "down_seq": "LEEKISNIEIAKLNEEEREQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "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": "Ser317" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.38.38", "start_pos": 38, "end_pos": 38, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "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": "NALSYNGRTVDKSKIPQYNQ", "down_seq": "FTSRTTSIAGINRYTMLSNS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser38" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P34250-1.41.41", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P34250-1.43.43", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P34250-1.45.45", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34250-1.398.398", "start_pos": 398, "end_pos": 398, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "IESKRKQHFHKGQEVASEVK", "down_seq": "ITIRQPTLSEPKPAYVPPED", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser398" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "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": "P34250-1.41.41", "start_pos": 41, "end_pos": 41, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "SYNGRTVDKSKIPQYNQSFT", "down_seq": "RTTSIAGINRYTMLSNSRTN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser41" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P34250-1.38.38", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P34250-1.43.43", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P34250-1.45.45", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.43.43", "start_pos": 43, "end_pos": 43, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "NGRTVDKSKIPQYNQSFTSR", "down_seq": "TSIAGINRYTMLSNSRTNSR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Thr43" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P34250-1.38.38", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P34250-1.41.41", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P34250-1.45.45", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.45.45", "start_pos": 45, "end_pos": 45, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "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": "S", "start_aa": "S", "up_seq": "RTVDKSKIPQYNQSFTSRTT", "down_seq": "IAGINRYTMLSNSRTNSRML", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "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": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "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": "Ser45" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P34250-1.38.38", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P34250-1.41.41", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P34250-1.43.43", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.500.500", "start_pos": 500, "end_pos": 500, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "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": "TGSELSDYNYIEGSATDLRA", "down_seq": "AKTSVESEIGGNQVGLKIPQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr500" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P34250-1.503.503", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P34250-1.504.504", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P34250-1.507.507", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34250-1.503.503", "start_pos": 503, "end_pos": 503, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "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": "ELSDYNYIEGSATDLRATAK", "down_seq": "SVESEIGGNQVGLKIPQDDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "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": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "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": "Thr503" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P34250-1.500.500", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P34250-1.504.504", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P34250-1.507.507", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34250-1.504.504", "start_pos": 504, "end_pos": 504, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "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": "LSDYNYIEGSATDLRATAKT", "down_seq": "VESEIGGNQVGLKIPQDDDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "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": "Ser504" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P34250-1.500.500", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P34250-1.503.503", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P34250-1.507.507", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P34250-1.524.524", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34250-1.507.507", "start_pos": 507, "end_pos": 507, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250", "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "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": "YNYIEGSATDLRATAKTSVE", "down_seq": "EIGGNQVGLKIPQDDDSEKQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "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": "Ser507" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P34250-1.500.500", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P34250-1.503.503", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P34250-1.504.504", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P34250-1.524.524", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34250-1.524.524", "start_pos": 524, "end_pos": 524, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "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": "SVESEIGGNQVGLKIPQDDD", "down_seq": "EKQEERTKGKKSGLVDTNCF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "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": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P34250-1.504.504", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P34250-1.507.507", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34250-1.556.556", "start_pos": 556, "end_pos": 556, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "database": "iPTMnet", "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": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SGLVDTNCFLVQKEDQEEAL", "down_seq": "DNEPESSEKFPSTSGIENVK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "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": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser556" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "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": "P34250-1.581.581", "start_pos": 581, "end_pos": 581, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "T", "start_aa": "T", "up_seq": "ESSEKFPSTSGIENVKLEDE", "down_seq": "GSVMDKNNGPNNDKDDDDDK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr581" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P34250-1.583.583", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34250-1.583.583", "start_pos": 583, "end_pos": 583, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "database": "iPTMnet", "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": "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": "SEKFPSTSGIENVKLEDETG", "down_seq": "VMDKNNGPNNDKDDDDDKDN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "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": "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": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P34250-1.581.581", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34250-1.663.663", "start_pos": 663, "end_pos": 663, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "EYHDSYDVIMRDPVQIEQDI", "down_seq": "DVPSLKHPSEYSTETEDNKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser663" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P34250-1.667.667", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P34250-1.672.672", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.667.667", "start_pos": 667, "end_pos": 667, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "SYDVIMRDPVQIEQDISDVP", "down_seq": "LKHPSEYSTETEDNKKKEQN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser667" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P34250-1.663.663", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P34250-1.672.672", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34250-1.672.672", "start_pos": 672, "end_pos": 672, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "MRDPVQIEQDISDVPSLKHP", "down_seq": "EYSTETEDNKKKEQNSENAE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser672" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P34250-1.663.663", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P34250-1.667.667", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P34250-1.688.688", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.688.688", "start_pos": 688, "end_pos": 688, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "LKHPSEYSTETEDNKKKEQN", "down_seq": "ENAEVSQSGTNMAKYLRGAN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser688" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P34250-1.672.672", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P34250-1.694.694", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P34250-1.696.696", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P34250-1.698.698", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.694.694", "start_pos": 694, "end_pos": 694, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "YSTETEDNKKKEQNSENAEV", "down_seq": "QSGTNMAKYLRGANPYLTNT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser694" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P34250-1.688.688", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P34250-1.696.696", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P34250-1.698.698", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34250-1.696.696", "start_pos": 696, "end_pos": 696, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TETEDNKKKEQNSENAEVSQ", "down_seq": "GTNMAKYLRGANPYLTNTSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ], "site_lbl": "Ser696" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P34250-1.688.688", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P34250-1.694.694", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P34250-1.698.698", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P34250-1.715.715", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.698.698", "start_pos": 698, "end_pos": 698, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "TEDNKKKEQNSENAEVSQSG", "down_seq": "NMAKYLRGANPYLTNTSSDT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr698" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P34250-1.688.688", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P34250-1.694.694", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P34250-1.696.696", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P34250-1.715.715", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.715.715", "start_pos": 715, "end_pos": 715, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "QSGTNMAKYLRGANPYLTNT", "down_seq": "SDTFSLDSENVNSKSSTDTT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser715" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P34250-1.696.696", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P34250-1.698.698", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P34250-1.720.720", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.720.720", "start_pos": 720, "end_pos": 720, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "MAKYLRGANPYLTNTSSDTF", "down_seq": "LDSENVNSKSSTDTTRVAPD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser720" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P34250-1.715.715", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.752.752", "start_pos": 752, "end_pos": 752, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TDTTRVAPDLLKSSLQPQLR", "down_seq": "DLKQSAVPSSTSSSIYSIET", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ], "site_lbl": "Ser752" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "upstream", "id": "P34250-1.769.769", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.769.769", "start_pos": 769, "end_pos": 769, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "QLRSDLKQSAVPSSTSSSIY", "down_seq": "IETSPNIDSSTGKTASNTKT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser769" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P34250-1.752.752", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.791.791", "start_pos": 791, "end_pos": 791, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "ETSPNIDSSTGKTASNTKTN", "down_seq": "HGPPTSISKQKYDQSSSHQI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser791" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P34250-1.796.796", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P34250-1.803.803", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P34250-1.807.807", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.796.796", "start_pos": 796, "end_pos": 796, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "IDSSTGKTASNTKTNSHGPP", "down_seq": "SISKQKYDQSSSHQIPVMSP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr796" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P34250-1.791.791", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P34250-1.803.803", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P34250-1.807.807", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P34250-1.815.815", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.803.803", "start_pos": 803, "end_pos": 803, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "TASNTKTNSHGPPTSISKQK", "down_seq": "DQSSSHQIPVMSPKRLDDKR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" } ], "site_lbl": "Tyr803" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P34250-1.791.791", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P34250-1.796.796", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P34250-1.807.807", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P34250-1.815.815", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.807.807", "start_pos": 807, "end_pos": 807, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "TKTNSHGPPTSISKQKYDQS", "down_seq": "SHQIPVMSPKRLDDKRKITN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser807" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P34250-1.791.791", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P34250-1.796.796", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P34250-1.803.803", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P34250-1.815.815", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.80.80", "start_pos": 80, "end_pos": 80, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "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": "TNSRMLLMNGNVRQYSKRTS", "down_seq": "LPNQGHKNTSNNSAGRRQHR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "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": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "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": "Ser80" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "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": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.815.815", "start_pos": 815, "end_pos": 815, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "PTSISKQKYDQSSSHQIPVM", "down_seq": "PKRLDDKRKITNRSCLRTLR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser815" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P34250-1.796.796", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P34250-1.803.803", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P34250-1.807.807", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.852.852", "start_pos": 852, "end_pos": 852, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "RTLRGSSNEATLSHNIVYPA", "down_seq": "DSSSSPPYHSKKPSNPPSSG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser852" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P34250-1.855.855", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P34250-1.856.856", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P34250-1.860.860", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P34250-1.866.866", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P34250-1.870.870", "categories": [ "glycosylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P34250-1.871.871", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.855.855", "start_pos": 855, "end_pos": 855, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "RGSSNEATLSHNIVYPASDS", "down_seq": "SSPPYHSKKPSNPPSSGNLA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser855" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P34250-1.852.852", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P34250-1.856.856", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P34250-1.860.860", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P34250-1.866.866", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P34250-1.870.870", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P34250-1.871.871", "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": "P34250-1.856.856", "start_pos": 856, "end_pos": 856, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "GSSNEATLSHNIVYPASDSS", "down_seq": "SPPYHSKKPSNPPSSGNLAS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser856" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P34250-1.852.852", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P34250-1.855.855", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P34250-1.860.860", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P34250-1.866.866", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P34250-1.870.870", "categories": [ "glycosylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P34250-1.871.871", "categories": [ "glycosylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P34250-1.876.876", "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": "P34250-1.860.860", "start_pos": 860, "end_pos": 860, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "EATLSHNIVYPASDSSSSPP", "down_seq": "HSKKPSNPPSSGNLASHEAS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Tyr860" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P34250-1.852.852", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P34250-1.855.855", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P34250-1.856.856", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P34250-1.866.866", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P34250-1.870.870", "categories": [ "glycosylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P34250-1.871.871", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P34250-1.876.876", "categories": [ "glycosylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P34250-1.880.880", "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": "P34250-1.909.909", "start_pos": 909, "end_pos": 909, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ASTTSRRLPDHVPLYIDKNN", "down_seq": "ALYPKEPPARKSSFEKERPA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ], "site_lbl": "Ser909" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "upstream", "id": "P34250-1.922.922", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.922.922", "start_pos": 922, "end_pos": 922, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "LYIDKNNSALYPKEPPARKS", "down_seq": "FEKERPAKDNLGFRSMSLRE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser922" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P34250-1.909.909", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P34250-1.973.973", "start_pos": 973, "end_pos": 973, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "AAENLDVEEKKEKGGHVSRK", "down_seq": "WTFGLPSPLKRRTSHSTHTT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "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": "Ser973" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P34250-1.975.975", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P34250-1.980.980", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P34250-1.987.987", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34250-1.975.975", "start_pos": 975, "end_pos": 975, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "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": "ENLDVEEKKEKGGHVSRKSW", "down_seq": "FGLPSPLKRRTSHSTHTTNE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr975" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P34250-1.973.973", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P34250-1.980.980", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P34250-1.987.987", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34250-1.980.980", "start_pos": 980, "end_pos": 980, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "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": "EEKKEKGGHVSRKSWTFGLP", "down_seq": "PLKRRTSHSTHTTNETEIVN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "database": "SGD", "id": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "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": "Ser980" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P34250-1.973.973", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P34250-1.975.975", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P34250-1.987.987", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P34250-1.987.987", "start_pos": 987, "end_pos": 987, "uniprot_canonical_ac": "P34250-1", "length": 1132, "uniprot_id": "SEG2_YEAST", "protein_name": "Eisosome protein SEG2", "refseq_ac": "NP_012817", "refseq_name": "Seg2p", "gene_name": "SEG2", "gene_names_uniprotkb": "SEG2; YKL459", "gene_names_refseq": "SEG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" } ], "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": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "https://www.uniprot.org/uniprotkb/P34250" }, { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "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": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250", "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": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588", "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": "GHVSRKSWTFGLPSPLKRRT", "down_seq": "HSTHTTNETEIVNPMTNFKN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P34250", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P34250" }, { "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": "S000001588", "url": "https://www.yeastgenome.org/locus/S000001588" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser987" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "866", "end_pos": "866" }, { "start_pos": "870", "end_pos": "870" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "880", "end_pos": "880" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1035", "end_pos": "1035" }, { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1052", "end_pos": "1052" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1071", "end_pos": "1071" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "696", "end_pos": "696" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "796", "end_pos": "796" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "807", "end_pos": "807" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "852", "end_pos": "852" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "866", "end_pos": "866" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "980", "end_pos": "980" }, { "start_pos": "987", "end_pos": "987" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P34250-1.973.973", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P34250-1.975.975", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P34250-1.980.980", "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": "P35172-1.112.112", "start_pos": 112, "end_pos": 112, "uniprot_canonical_ac": "P35172-1", "length": 780, "uniprot_id": "TREB_YEAST", "protein_name": "Probable trehalase", "refseq_ac": "NP_009555", "refseq_name": "alpha,alpha-trehalase NTH2", "gene_name": "NTH2", "gene_names_uniprotkb": "NTH2; YBR0106", "gene_names_refseq": "NTH2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35172", "url": "https://www.uniprot.org/uniprotkb/P35172" } ], "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": "P35172", "url": "https://www.uniprot.org/uniprotkb/P35172" }, { "database": "iPTMnet", "id": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" } ], "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": "P35172", "url": "https://www.uniprot.org/uniprotkb/P35172" }, { "database": "iPTMnet", "id": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" } ], "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": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" } ], "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": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" } ], "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": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" } ], "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": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" } ], "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": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" } ], "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": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" } ], "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": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P35172", "url": "https://www.uniprot.org/uniprotkb/P35172", "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": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172", "database": "iPTMnet", "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": "S000000205", "url": "https://www.yeastgenome.org/locus/S000000205", "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": "FNKVSDFKNGMKDYTLKRRG", "down_seq": "EDDSFLSSQGNRRFYIDNVD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P35172", "url": "https://www.uniprot.org/uniprotkb/P35172" }, { "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": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" }, { "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": "S000000205", "url": "https://www.yeastgenome.org/locus/S000000205" }, { "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": "Ser112" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P35172-1.116.116", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P35172-1.116.116", "start_pos": 116, "end_pos": 116, "uniprot_canonical_ac": "P35172-1", "length": 780, "uniprot_id": "TREB_YEAST", "protein_name": "Probable trehalase", "refseq_ac": "NP_009555", "refseq_name": "alpha,alpha-trehalase NTH2", "gene_name": "NTH2", "gene_names_uniprotkb": "NTH2; YBR0106", "gene_names_refseq": "NTH2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35172", "url": "https://www.uniprot.org/uniprotkb/P35172" } ], "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": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" } ], "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": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000205", "url": "https://www.yeastgenome.org/locus/S000000205", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172", "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": "SDFKNGMKDYTLKRRGSEDD", "down_seq": "FLSSQGNRRFYIDNVDLALD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000205", "url": "https://www.yeastgenome.org/locus/S000000205" }, { "database": "iPTMnet", "id": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser116" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P35172-1.112.112", "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": "P35172-1.52.52", "start_pos": 52, "end_pos": 52, "uniprot_canonical_ac": "P35172-1", "length": 780, "uniprot_id": "TREB_YEAST", "protein_name": "Probable trehalase", "refseq_ac": "NP_009555", "refseq_name": "alpha,alpha-trehalase NTH2", "gene_name": "NTH2", "gene_names_uniprotkb": "NTH2; YBR0106", "gene_names_refseq": "NTH2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35172", "url": "https://www.uniprot.org/uniprotkb/P35172" } ], "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": "P35172", "url": "https://www.uniprot.org/uniprotkb/P35172" }, { "database": "iPTMnet", "id": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" } ], "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": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P35172", "url": "https://www.uniprot.org/uniprotkb/P35172", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000000205", "url": "https://www.yeastgenome.org/locus/S000000205", "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": "EQRPLKEEGQQGGRRHHRRL", "down_seq": "SMHEYFDPFSNAEVYYGPIT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P35172", "url": "https://www.uniprot.org/uniprotkb/P35172" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" }, { "database": "SGD", "id": "S000000205", "url": "https://www.yeastgenome.org/locus/S000000205" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser52" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P35172-1.53.53", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P35172-1.57.57", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P35172-1.67.67", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P35172-1.53.53", "start_pos": 53, "end_pos": 53, "uniprot_canonical_ac": "P35172-1", "length": 780, "uniprot_id": "TREB_YEAST", "protein_name": "Probable trehalase", "refseq_ac": "NP_009555", "refseq_name": "alpha,alpha-trehalase NTH2", "gene_name": "NTH2", "gene_names_uniprotkb": "NTH2; YBR0106", "gene_names_refseq": "NTH2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35172", "url": "https://www.uniprot.org/uniprotkb/P35172" } ], "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": "P35172", "url": "https://www.uniprot.org/uniprotkb/P35172" }, { "database": "iPTMnet", "id": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P35172", "url": "https://www.uniprot.org/uniprotkb/P35172", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000000205", "url": "https://www.yeastgenome.org/locus/S000000205", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QRPLKEEGQQGGRRHHRRLS", "down_seq": "MHEYFDPFSNAEVYYGPITD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P35172", "url": "https://www.uniprot.org/uniprotkb/P35172" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" }, { "database": "SGD", "id": "S000000205", "url": "https://www.yeastgenome.org/locus/S000000205" } ], "site_lbl": "Ser53" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P35172-1.52.52", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P35172-1.57.57", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P35172-1.67.67", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35172-1.57.57", "start_pos": 57, "end_pos": 57, "uniprot_canonical_ac": "P35172-1", "length": 780, "uniprot_id": "TREB_YEAST", "protein_name": "Probable trehalase", "refseq_ac": "NP_009555", "refseq_name": "alpha,alpha-trehalase NTH2", "gene_name": "NTH2", "gene_names_uniprotkb": "NTH2; YBR0106", "gene_names_refseq": "NTH2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35172", "url": "https://www.uniprot.org/uniprotkb/P35172" } ], "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": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000205", "url": "https://www.yeastgenome.org/locus/S000000205", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172", "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": "KEEGQQGGRRHHRRLSSMHE", "down_seq": "FDPFSNAEVYYGPITDPRKQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000205", "url": "https://www.yeastgenome.org/locus/S000000205" }, { "database": "iPTMnet", "id": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Tyr57" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P35172-1.52.52", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P35172-1.53.53", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P35172-1.67.67", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35172-1.67.67", "start_pos": 67, "end_pos": 67, "uniprot_canonical_ac": "P35172-1", "length": 780, "uniprot_id": "TREB_YEAST", "protein_name": "Probable trehalase", "refseq_ac": "NP_009555", "refseq_name": "alpha,alpha-trehalase NTH2", "gene_name": "NTH2", "gene_names_uniprotkb": "NTH2; YBR0106", "gene_names_refseq": "NTH2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35172", "url": "https://www.uniprot.org/uniprotkb/P35172" } ], "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": "P35172", "url": "https://www.uniprot.org/uniprotkb/P35172" }, { "database": "iPTMnet", "id": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000205", "url": "https://www.yeastgenome.org/locus/S000000205", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "HHRRLSSMHEYFDPFSNAEV", "down_seq": "YGPITDPRKQSKIHRLNRTR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000205", "url": "https://www.yeastgenome.org/locus/S000000205" } ], "site_lbl": "Tyr67" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P35172-1.52.52", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P35172-1.53.53", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P35172-1.57.57", "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": "P35172-1.88.88", "start_pos": 88, "end_pos": 88, "uniprot_canonical_ac": "P35172-1", "length": 780, "uniprot_id": "TREB_YEAST", "protein_name": "Probable trehalase", "refseq_ac": "NP_009555", "refseq_name": "alpha,alpha-trehalase NTH2", "gene_name": "NTH2", "gene_names_uniprotkb": "NTH2; YBR0106", "gene_names_refseq": "NTH2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35172", "url": "https://www.uniprot.org/uniprotkb/P35172" } ], "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": "P35172", "url": "https://www.uniprot.org/uniprotkb/P35172" }, { "database": "iPTMnet", "id": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" } ], "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": "P35172", "url": "https://www.uniprot.org/uniprotkb/P35172" }, { "database": "iPTMnet", "id": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" } ], "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": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" } ], "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": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P35172", "url": "https://www.uniprot.org/uniprotkb/P35172", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000205", "url": "https://www.yeastgenome.org/locus/S000000205", "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": "YGPITDPRKQSKIHRLNRTR", "down_seq": "MSVFNKVSDFKNGMKDYTLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P35172", "url": "https://www.uniprot.org/uniprotkb/P35172" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "iPTMnet", "id": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000205", "url": "https://www.yeastgenome.org/locus/S000000205" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr88" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P35172-1.90.90", "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": "P35172-1.90.90", "start_pos": 90, "end_pos": 90, "uniprot_canonical_ac": "P35172-1", "length": 780, "uniprot_id": "TREB_YEAST", "protein_name": "Probable trehalase", "refseq_ac": "NP_009555", "refseq_name": "alpha,alpha-trehalase NTH2", "gene_name": "NTH2", "gene_names_uniprotkb": "NTH2; YBR0106", "gene_names_refseq": "NTH2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35172", "url": "https://www.uniprot.org/uniprotkb/P35172" } ], "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": "P35172", "url": "https://www.uniprot.org/uniprotkb/P35172" }, { "database": "iPTMnet", "id": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" } ], "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": "P35172", "url": "https://www.uniprot.org/uniprotkb/P35172" }, { "database": "iPTMnet", "id": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" } ], "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": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" } ], "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": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" } ], "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": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" } ], "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": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172", "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": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000205", "url": "https://www.yeastgenome.org/locus/S000000205", "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": "PITDPRKQSKIHRLNRTRTM", "down_seq": "VFNKVSDFKNGMKDYTLKRR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P35172", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35172" }, { "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": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000000205", "url": "https://www.yeastgenome.org/locus/S000000205" }, { "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": "Ser90" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P35172-1.88.88", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P35195-1.36.36", "start_pos": 36, "end_pos": 36, "uniprot_canonical_ac": "P35195-1", "length": 104, "uniprot_id": "ECM15_YEAST", "protein_name": "UPF0045 thiamine-binding protein family member ECM15", "refseq_ac": "NP_009554", "refseq_name": "Ecm15p", "gene_name": "ECM15", "gene_names_uniprotkb": "ECM15; YBL0105", "gene_names_refseq": "ECM15", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35195", "url": "https://www.uniprot.org/uniprotkb/P35195" } ], "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": "P35195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35195" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000097", "url": "https://www.yeastgenome.org/locus/S000000097", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35195", "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": "GTDSASISDFVALIEKKIRE", "down_seq": "PLKSTLHSAGTTIEGPWDDV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000097", "url": "https://www.yeastgenome.org/locus/S000000097" }, { "database": "iPTMnet", "id": "P35195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35195" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser36" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "36", "end_pos": "36" } ] } ], "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": "P35209-1.44.44", "start_pos": 44, "end_pos": 44, "uniprot_canonical_ac": "P35209-1", "length": 758, "uniprot_id": "SPT21_YEAST", "protein_name": "Protein SPT21", "refseq_ac": "NP_013904", "refseq_name": "Spt21p", "gene_name": "SPT21", "gene_names_uniprotkb": "SPT21; YM8010.09", "gene_names_refseq": "SPT21", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35209", "url": "https://www.uniprot.org/uniprotkb/P35209" } ], "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": "LARSRAPKQVRVANIPSPFP", "down_seq": "DSNEQTELRIGAIHLKTILH", "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": "Thr44", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "44", "end_pos": "44" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "693", "end_pos": "693" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "748", "end_pos": "748" } ] } ], "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": 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": "P35209-1.163.163", "start_pos": 163, "end_pos": 163, "uniprot_canonical_ac": "P35209-1", "length": 758, "uniprot_id": "SPT21_YEAST", "protein_name": "Protein SPT21", "refseq_ac": "NP_013904", "refseq_name": "Spt21p", "gene_name": "SPT21", "gene_names_uniprotkb": "SPT21; YM8010.09", "gene_names_refseq": "SPT21", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35209", "url": "https://www.uniprot.org/uniprotkb/P35209" } ], "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": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209", "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": "DESFIVTGRVCSNVSALLRR", "down_seq": "YSNISNKKGRVVNNQIPEET", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791" }, { "database": "iPTMnet", "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser163" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "44", "end_pos": "44" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "693", "end_pos": "693" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "748", "end_pos": "748" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P35209-1.165.165", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P35209-1.168.168", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35209-1.165.165", "start_pos": 165, "end_pos": 165, "uniprot_canonical_ac": "P35209-1", "length": 758, "uniprot_id": "SPT21_YEAST", "protein_name": "Protein SPT21", "refseq_ac": "NP_013904", "refseq_name": "Spt21p", "gene_name": "SPT21", "gene_names_uniprotkb": "SPT21; YM8010.09", "gene_names_refseq": "SPT21", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35209", "url": "https://www.uniprot.org/uniprotkb/P35209" } ], "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": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" } ], "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": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209", "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": "SFIVTGRVCSNVSALLRRSY", "down_seq": "NISNKKGRVVNNQIPEETLE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791" }, { "database": "iPTMnet", "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser165" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "44", "end_pos": "44" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "693", "end_pos": "693" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "748", "end_pos": "748" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P35209-1.163.163", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P35209-1.168.168", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P35209-1.168.168", "start_pos": 168, "end_pos": 168, "uniprot_canonical_ac": "P35209-1", "length": 758, "uniprot_id": "SPT21_YEAST", "protein_name": "Protein SPT21", "refseq_ac": "NP_013904", "refseq_name": "Spt21p", "gene_name": "SPT21", "gene_names_uniprotkb": "SPT21; YM8010.09", "gene_names_refseq": "SPT21", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35209", "url": "https://www.uniprot.org/uniprotkb/P35209" } ], "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": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209", "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": "VTGRVCSNVSALLRRSYSNI", "down_seq": "NKKGRVVNNQIPEETLEVKL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791" }, { "database": "iPTMnet", "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser168" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "44", "end_pos": "44" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "693", "end_pos": "693" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "748", "end_pos": "748" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P35209-1.163.163", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P35209-1.165.165", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35209-1.276.276", "start_pos": 276, "end_pos": 276, "uniprot_canonical_ac": "P35209-1", "length": 758, "uniprot_id": "SPT21_YEAST", "protein_name": "Protein SPT21", "refseq_ac": "NP_013904", "refseq_name": "Spt21p", "gene_name": "SPT21", "gene_names_uniprotkb": "SPT21; YM8010.09", "gene_names_refseq": "SPT21", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35209", "url": "https://www.uniprot.org/uniprotkb/P35209" } ], "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": "P35209", "url": "https://www.uniprot.org/uniprotkb/P35209" }, { "database": "iPTMnet", "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" } ], "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": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791", "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": "GTVGRRQTNPMPAPKAVRTQ", "down_seq": "LPIWNLKPNIANTGFPRNSI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser276" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "44", "end_pos": "44" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "693", "end_pos": "693" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "748", "end_pos": "748" } ] } ], "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": "P35209-1.359.359", "start_pos": 359, "end_pos": 359, "uniprot_canonical_ac": "P35209-1", "length": 758, "uniprot_id": "SPT21_YEAST", "protein_name": "Protein SPT21", "refseq_ac": "NP_013904", "refseq_name": "Spt21p", "gene_name": "SPT21", "gene_names_uniprotkb": "SPT21; YM8010.09", "gene_names_refseq": "SPT21", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35209", "url": "https://www.uniprot.org/uniprotkb/P35209" } ], "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": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209", "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": "DSVSKRFDFMLNKRKSTKKV", "down_seq": "PGIATIAKKPASININPKQP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791" }, { "database": "iPTMnet", "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser359" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "44", "end_pos": "44" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "693", "end_pos": "693" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "748", "end_pos": "748" } ] } ], "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": "P35209-1.402.402", "start_pos": 402, "end_pos": 402, "uniprot_canonical_ac": "P35209-1", "length": 758, "uniprot_id": "SPT21_YEAST", "protein_name": "Protein SPT21", "refseq_ac": "NP_013904", "refseq_name": "Spt21p", "gene_name": "SPT21", "gene_names_uniprotkb": "SPT21; YM8010.09", "gene_names_refseq": "SPT21", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35209", "url": "https://www.uniprot.org/uniprotkb/P35209" } ], "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": "iPTMnet", "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TSGEKKANDKQTIVKVKNSN", "down_seq": "KNSAKSTQAGCRRSSVIEHL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791" } ], "site_lbl": "Ser402" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "44", "end_pos": "44" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "693", "end_pos": "693" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "748", "end_pos": "748" } ] } ], "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": "P35209-1.454.454", "start_pos": 454, "end_pos": 454, "uniprot_canonical_ac": "P35209-1", "length": 758, "uniprot_id": "SPT21_YEAST", "protein_name": "Protein SPT21", "refseq_ac": "NP_013904", "refseq_name": "Spt21p", "gene_name": "SPT21", "gene_names_uniprotkb": "SPT21; YM8010.09", "gene_names_refseq": "SPT21", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35209", "url": "https://www.uniprot.org/uniprotkb/P35209" } ], "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": "P35209", "url": "https://www.uniprot.org/uniprotkb/P35209" }, { "database": "iPTMnet", "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" } ], "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": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P35209", "url": "https://www.uniprot.org/uniprotkb/P35209", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791", "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": "LSEPGIEGQKLQQKQKGRKI", "down_seq": "LTSENDKENIPPQSITSKEN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P35209", "url": "https://www.uniprot.org/uniprotkb/P35209" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "iPTMnet", "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" }, { "database": "SGD", "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser454" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "44", "end_pos": "44" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "693", "end_pos": "693" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "748", "end_pos": "748" } ] } ], "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": "P35209-1.564.564", "start_pos": 564, "end_pos": 564, "uniprot_canonical_ac": "P35209-1", "length": 758, "uniprot_id": "SPT21_YEAST", "protein_name": "Protein SPT21", "refseq_ac": "NP_013904", "refseq_name": "Spt21p", "gene_name": "SPT21", "gene_names_uniprotkb": "SPT21; YM8010.09", "gene_names_refseq": "SPT21", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35209", "url": "https://www.uniprot.org/uniprotkb/P35209" } ], "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": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209", "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": "LENEDVSELETAQNNKISLP", "down_seq": "DVDKTSPIDSLSIPLIELTH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791" }, { "database": "iPTMnet", "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser564" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "44", "end_pos": "44" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "693", "end_pos": "693" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "748", "end_pos": "748" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P35209-1.569.569", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35209-1.569.569", "start_pos": 569, "end_pos": 569, "uniprot_canonical_ac": "P35209-1", "length": 758, "uniprot_id": "SPT21_YEAST", "protein_name": "Protein SPT21", "refseq_ac": "NP_013904", "refseq_name": "Spt21p", "gene_name": "SPT21", "gene_names_uniprotkb": "SPT21; YM8010.09", "gene_names_refseq": "SPT21", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35209", "url": "https://www.uniprot.org/uniprotkb/P35209" } ], "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": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209", "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": "VSELETAQNNKISLPSDVDK", "down_seq": "SPIDSLSIPLIELTHSSSTT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791" }, { "database": "iPTMnet", "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr569" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "44", "end_pos": "44" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "693", "end_pos": "693" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "748", "end_pos": "748" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P35209-1.564.564", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35209-1.607.607", "start_pos": 607, "end_pos": 607, "uniprot_canonical_ac": "P35209-1", "length": 758, "uniprot_id": "SPT21_YEAST", "protein_name": "Protein SPT21", "refseq_ac": "NP_013904", "refseq_name": "Spt21p", "gene_name": "SPT21", "gene_names_uniprotkb": "SPT21; YM8010.09", "gene_names_refseq": "SPT21", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35209", "url": "https://www.uniprot.org/uniprotkb/P35209" } ], "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": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" } ], "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": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209", "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": "STTNMQRISIKEGSTLNITD", "down_seq": "NNATPCDNDIKDRKASVIDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791" }, { "database": "iPTMnet", "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser607" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "44", "end_pos": "44" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "693", "end_pos": "693" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "748", "end_pos": "748" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P35209-1.611.611", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P35209-1.623.623", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35209-1.611.611", "start_pos": 611, "end_pos": 611, "uniprot_canonical_ac": "P35209-1", "length": 758, "uniprot_id": "SPT21_YEAST", "protein_name": "Protein SPT21", "refseq_ac": "NP_013904", "refseq_name": "Spt21p", "gene_name": "SPT21", "gene_names_uniprotkb": "SPT21; YM8010.09", "gene_names_refseq": "SPT21", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35209", "url": "https://www.uniprot.org/uniprotkb/P35209" } ], "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": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209", "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": "MQRISIKEGSTLNITDSNNA", "down_seq": "PCDNDIKDRKASVIDSDNTK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791" }, { "database": "iPTMnet", "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr611" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "44", "end_pos": "44" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "693", "end_pos": "693" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "748", "end_pos": "748" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P35209-1.607.607", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P35209-1.623.623", "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": "P35209-1.623.623", "start_pos": 623, "end_pos": 623, "uniprot_canonical_ac": "P35209-1", "length": 758, "uniprot_id": "SPT21_YEAST", "protein_name": "Protein SPT21", "refseq_ac": "NP_013904", "refseq_name": "Spt21p", "gene_name": "SPT21", "gene_names_uniprotkb": "SPT21; YM8010.09", "gene_names_refseq": "SPT21", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35209", "url": "https://www.uniprot.org/uniprotkb/P35209" } ], "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": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" } ], "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": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209", "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": "NITDSNNATPCDNDIKDRKA", "down_seq": "VIDSDNTKPQAGLINFSTPA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791" }, { "database": "iPTMnet", "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser623" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "44", "end_pos": "44" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "693", "end_pos": "693" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "748", "end_pos": "748" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P35209-1.607.607", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P35209-1.611.611", "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": "P35209-1.693.693", "start_pos": 693, "end_pos": 693, "uniprot_canonical_ac": "P35209-1", "length": 758, "uniprot_id": "SPT21_YEAST", "protein_name": "Protein SPT21", "refseq_ac": "NP_013904", "refseq_name": "Spt21p", "gene_name": "SPT21", "gene_names_uniprotkb": "SPT21; YM8010.09", "gene_names_refseq": "SPT21", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35209", "url": "https://www.uniprot.org/uniprotkb/P35209" } ], "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": "P35209", "url": "https://www.uniprot.org/uniprotkb/P35209" }, { "database": "iPTMnet", "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209", "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": "EVLDEEEEEEALKKQKAIPS", "down_seq": "PCGMFNYHQPMELSEDIVEE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791" }, { "database": "iPTMnet", "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Ser693" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "44", "end_pos": "44" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "693", "end_pos": "693" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "748", "end_pos": "748" } ] } ], "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": "P35209-1.747.747", "start_pos": 747, "end_pos": 747, "uniprot_canonical_ac": "P35209-1", "length": 758, "uniprot_id": "SPT21_YEAST", "protein_name": "Protein SPT21", "refseq_ac": "NP_013904", "refseq_name": "Spt21p", "gene_name": "SPT21", "gene_names_uniprotkb": "SPT21; YM8010.09", "gene_names_refseq": "SPT21", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35209", "url": "https://www.uniprot.org/uniprotkb/P35209" } ], "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": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" } ], "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": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" } ], "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": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" } ], "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": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791", "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": "KTNDLFSTFIHSGIRVSQVV", "down_seq": "SPIGEFQSIKH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791" }, { "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": "Thr747" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "44", "end_pos": "44" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "693", "end_pos": "693" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "748", "end_pos": "748" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P35209-1.748.748", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35209-1.748.748", "start_pos": 748, "end_pos": 748, "uniprot_canonical_ac": "P35209-1", "length": 758, "uniprot_id": "SPT21_YEAST", "protein_name": "Protein SPT21", "refseq_ac": "NP_013904", "refseq_name": "Spt21p", "gene_name": "SPT21", "gene_names_uniprotkb": "SPT21; YM8010.09", "gene_names_refseq": "SPT21", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35209", "url": "https://www.uniprot.org/uniprotkb/P35209" } ], "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": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" } ], "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": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" } ], "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": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" } ], "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": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791", "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": "TNDLFSTFIHSGIRVSQVVT", "down_seq": "PIGEFQSIKH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P35209", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35209" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000004791", "url": "https://www.yeastgenome.org/locus/S000004791" }, { "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": "Ser748" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "44", "end_pos": "44" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "693", "end_pos": "693" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "748", "end_pos": "748" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P35209-1.747.747", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.463.463", "start_pos": 463, "end_pos": 463, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "database": "iPTMnet", "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": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "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": "ASIYSQDNSAGHIKTHPNSP", "down_seq": "PGIKAETVSQLQGLTAKNPS", "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": "Thr463", "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": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "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": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "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": "Thr463" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P35724-1.457.457", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P35724-1.461.461", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P35724-1.470.470", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P35724-1.472.472", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.104.104", "start_pos": 104, "end_pos": 104, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "NDIIKSEDPSLKGAFIDHRP", "down_seq": "MSQPREGPQSVSSTVQPQPI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser104" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P35724-1.93.93", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P35724-1.114.114", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P35724-1.116.116", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P35724-1.117.117", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P35724-1.118.118", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.114.114", "start_pos": 114, "end_pos": 114, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724", "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "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": "LKGAFIDHRPSMSQPREGPQ", "down_seq": "VSSTVQPQPIMKFSTPSYKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "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": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "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": "Ser114" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P35724-1.104.104", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P35724-1.116.116", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P35724-1.117.117", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P35724-1.118.118", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P35724-1.129.129", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P35724-1.131.131", "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.116.116", "start_pos": 116, "end_pos": 116, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "GAFIDHRPSMSQPREGPQSV", "down_seq": "STVQPQPIMKFSTPSYKKPA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser116" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P35724-1.104.104", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P35724-1.114.114", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P35724-1.117.117", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P35724-1.118.118", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P35724-1.129.129", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P35724-1.131.131", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.117.117", "start_pos": 117, "end_pos": 117, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "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": "AFIDHRPSMSQPREGPQSVS", "down_seq": "TVQPQPIMKFSTPSYKKPAG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser117" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P35724-1.104.104", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P35724-1.114.114", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P35724-1.116.116", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P35724-1.118.118", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P35724-1.129.129", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P35724-1.131.131", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.118.118", "start_pos": 118, "end_pos": 118, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "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": "FIDHRPSMSQPREGPQSVSS", "down_seq": "VQPQPIMKFSTPSYKKPAGL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr118" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P35724-1.104.104", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P35724-1.114.114", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P35724-1.116.116", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P35724-1.117.117", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P35724-1.129.129", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P35724-1.131.131", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.129.129", "start_pos": 129, "end_pos": 129, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "REGPQSVSSTVQPQPIMKFS", "down_seq": "PSYKKPAGLRPSDQNRSLVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr129" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P35724-1.114.114", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P35724-1.116.116", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P35724-1.117.117", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P35724-1.118.118", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P35724-1.131.131", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P35724-1.141.141", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P35724-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P35724-1.149.149", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P35724-1.131.131", "start_pos": 131, "end_pos": 131, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "GPQSVSSTVQPQPIMKFSTP", "down_seq": "YKKPAGLRPSDQNRSLVSDL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser131" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P35724-1.114.114", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P35724-1.116.116", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P35724-1.117.117", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P35724-1.118.118", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P35724-1.129.129", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P35724-1.141.141", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P35724-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P35724-1.149.149", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.141.141", "start_pos": 141, "end_pos": 141, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ] } ], "crossref": [ { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PQPIMKFSTPSYKKPAGLRP", "down_seq": "DQNRSLVSDLSPSELESWLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ], "site_lbl": "Ser141" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P35724-1.129.129", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P35724-1.131.131", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P35724-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P35724-1.149.149", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P35724-1.152.152", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.146.146", "start_pos": 146, "end_pos": 146, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "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": "KFSTPSYKKPAGLRPSDQNR", "down_seq": "LVSDLSPSELESWLKRRKSV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser146" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P35724-1.129.129", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P35724-1.131.131", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P35724-1.141.141", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P35724-1.149.149", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P35724-1.152.152", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P35724-1.165.165", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P35724-1.149.149", "start_pos": 149, "end_pos": 149, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "TPSYKKPAGLRPSDQNRSLV", "down_seq": "DLSPSELESWLKRRKSVHKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser149" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P35724-1.129.129", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P35724-1.131.131", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P35724-1.141.141", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P35724-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P35724-1.152.152", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P35724-1.165.165", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P35724-1.169.169", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.152.152", "start_pos": 152, "end_pos": 152, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "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": "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": "YKKPAGLRPSDQNRSLVSDL", "down_seq": "PSELESWLKRRKSVHKSFVD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "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": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "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": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser152" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P35724-1.141.141", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P35724-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P35724-1.149.149", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P35724-1.165.165", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P35724-1.169.169", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P35724-1.165.165", "start_pos": 165, "end_pos": 165, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "RSLVSDLSPSELESWLKRRK", "down_seq": "VHKSFVDENSPTDRRQSNAN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser165" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P35724-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P35724-1.149.149", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P35724-1.152.152", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P35724-1.169.169", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P35724-1.175.175", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P35724-1.177.177", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P35724-1.182.182", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.169.169", "start_pos": 169, "end_pos": 169, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "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": "SDLSPSELESWLKRRKSVHK", "down_seq": "FVDENSPTDRRQSNANNDVV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "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": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser169" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P35724-1.149.149", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P35724-1.152.152", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P35724-1.165.165", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P35724-1.175.175", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P35724-1.177.177", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P35724-1.182.182", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P35724-1.16.16", "start_pos": 16, "end_pos": 16, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "MSTDNSQKDEGVPLL", "down_seq": "PYSSSPQLRKKKRNQKRRKD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser16" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P35724-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P35724-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P35724-1.21.21", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.175.175", "start_pos": 175, "end_pos": 175, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724", "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "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": "ELESWLKRRKSVHKSFVDEN", "down_seq": "PTDRRQSNANNDVVIDVDAL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "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": "Ser175" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P35724-1.165.165", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P35724-1.169.169", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P35724-1.177.177", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P35724-1.182.182", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P35724-1.177.177", "start_pos": 177, "end_pos": 177, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475" } ] }, { "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475", "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": "T", "start_aa": "T", "up_seq": "ESWLKRRKSVHKSFVDENSP", "down_seq": "DRRQSNANNDVVIDVDALMN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "PubMed", "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr177" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P35724-1.165.165", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P35724-1.169.169", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P35724-1.175.175", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P35724-1.182.182", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P35724-1.182.182", "start_pos": 182, "end_pos": 182, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] } ], "crossref": [ { "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RRKSVHKSFVDENSPTDRRQ", "down_seq": "NANNDVVIDVDALMNHVNNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" } ], "site_lbl": "Ser182" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P35724-1.165.165", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P35724-1.169.169", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P35724-1.175.175", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P35724-1.177.177", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.19.19", "start_pos": 19, "end_pos": 19, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "MSTDNSQKDEGVPLLSPY", "down_seq": "SSPQLRKKKRNQKRRKDKFV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser19" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P35724-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P35724-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P35724-1.21.21", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.20.20", "start_pos": 20, "end_pos": 20, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "", "down_seq": "SPQLRKKKRNQKRRKDKFVG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser20" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P35724-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P35724-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P35724-1.21.21", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.21.21", "start_pos": 21, "end_pos": 21, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "MSTDNSQKDEGVPLLSPYSS", "down_seq": "PQLRKKKRNQKRRKDKFVGH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "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": "Ser21" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P35724-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P35724-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P35724-1.20.20", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.223.223", "start_pos": 223, "end_pos": 223, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "ASTGVNDNSKRRKKKRGSDD", "down_seq": "SNKNSKSTSSDSNDEEDEYN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Ser223" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.269.269", "start_pos": 269, "end_pos": 269, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "SLSSNNSSLDDVCLVLDDEG", "down_seq": "EVPKAWPDCTVLEEFSKEET", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser269" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.373.373", "start_pos": 373, "end_pos": 373, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "RPKRIAPWHLIQRPMVLGSN", "down_seq": "TKDSKSRIQSGLQDNLLVGR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser373" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P35724-1.374.374", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P35724-1.383.383", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.374.374", "start_pos": 374, "end_pos": 374, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "PKRIAPWHLIQRPMVLGSNS", "down_seq": "KDSKSRIQSGLQDNLLVGRN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr374" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P35724-1.373.373", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P35724-1.383.383", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.383.383", "start_pos": 383, "end_pos": 383, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "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": "IQRPMVLGSNSTKDSKSRIQ", "down_seq": "GLQDNLLVGRNIQYPPHIIS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser383" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P35724-1.373.373", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P35724-1.374.374", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P35724-1.424.424", "start_pos": 424, "end_pos": 424, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "NNPEHFRFTYFRVDLDSTVH", "down_seq": "PTISGLLQPGQKFQDLFVAS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser424" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "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": "P35724-1.457.457", "start_pos": 457, "end_pos": 457, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "FQDLFVASIYSQDNSAGHIK", "down_seq": "HPNSPTPGIKAETVSQLQGL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr457" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P35724-1.461.461", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P35724-1.463.463", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P35724-1.470.470", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P35724-1.472.472", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.461.461", "start_pos": 461, "end_pos": 461, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "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": "FVASIYSQDNSAGHIKTHPN", "down_seq": "PTPGIKAETVSQLQGLTAKN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "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": "Ser461" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P35724-1.457.457", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P35724-1.463.463", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P35724-1.470.470", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P35724-1.472.472", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P35724-1.470.470", "start_pos": 470, "end_pos": 470, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "NSAGHIKTHPNSPTPGIKAE", "down_seq": "VSQLQGLTAKNPSTLSSMSV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr470" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P35724-1.457.457", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P35724-1.461.461", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P35724-1.463.463", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P35724-1.472.472", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.472.472", "start_pos": 472, "end_pos": 472, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "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": "AGHIKTHPNSPTPGIKAETV", "down_seq": "QLQGLTAKNPSTLSSMSVAN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "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": "Ser472" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P35724-1.457.457", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P35724-1.461.461", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P35724-1.463.463", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P35724-1.470.470", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P35724-1.569.569", "start_pos": 569, "end_pos": 569, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "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": "RSFDIVAEKHVRRRRKEKQE", "down_seq": "ATLDHESISRRKSQAYGATM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser569" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P35724-1.571.571", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P35724-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P35724-1.578.578", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P35724-1.582.582", "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": "P35724-1.571.571", "start_pos": 571, "end_pos": 571, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "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": "FDIVAEKHVRRRRKEKQESA", "down_seq": "LDHESISRRKSQAYGATMSN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "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": "Thr571" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P35724-1.569.569", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P35724-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P35724-1.578.578", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P35724-1.582.582", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P35724-1.590.590", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P35724-1.576.576", "start_pos": 576, "end_pos": 576, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "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": "EKHVRRRRKEKQESATLDHE", "down_seq": "ISRRKSQAYGATMSNESNAN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "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": "Ser576" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P35724-1.569.569", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P35724-1.571.571", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P35724-1.578.578", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P35724-1.582.582", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P35724-1.590.590", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P35724-1.593.593", "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.578.578", "start_pos": 578, "end_pos": 578, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "HVRRRRKEKQESATLDHESI", "down_seq": "RRKSQAYGATMSNESNANNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser578" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P35724-1.569.569", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P35724-1.571.571", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P35724-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P35724-1.582.582", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P35724-1.590.590", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P35724-1.593.593", "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": "P35724-1.582.582", "start_pos": 582, "end_pos": 582, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "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": "RRKEKQESATLDHESISRRK", "down_seq": "QAYGATMSNESNANNNNSTS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser582" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P35724-1.569.569", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P35724-1.571.571", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P35724-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P35724-1.578.578", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P35724-1.590.590", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P35724-1.593.593", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.590.590", "start_pos": 590, "end_pos": 590, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "ATLDHESISRRKSQAYGATM", "down_seq": "NESNANNNNSTSNASRSKWL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser590" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P35724-1.571.571", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P35724-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P35724-1.578.578", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P35724-1.582.582", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P35724-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P35724-1.605.605", "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": "P35724-1.593.593", "start_pos": 593, "end_pos": 593, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "DHESISRRKSQAYGATMSNE", "down_seq": "NANNNNSTSNASRSKWLPSI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser593" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P35724-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P35724-1.578.578", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P35724-1.582.582", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P35724-1.590.590", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P35724-1.605.605", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P35724-1.612.612", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.605.605", "start_pos": 605, "end_pos": 605, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "YGATMSNESNANNNNSTSNA", "down_seq": "RSKWLPSILRARRRSSANRT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser605" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P35724-1.590.590", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P35724-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P35724-1.612.612", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.612.612", "start_pos": 612, "end_pos": 612, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "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": "ESNANNNNSTSNASRSKWLP", "down_seq": "ILRARRRSSANRTTNTSSSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "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": "Ser612" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P35724-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P35724-1.605.605", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P35724-1.629.629", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P35724-1.631.631", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P35724-1.632.632", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P35724-1.629.629", "start_pos": 629, "end_pos": 629, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "WLPSILRARRRSSANRTTNT", "down_seq": "SSSYKRRVKSEKKKMEENEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser629" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P35724-1.612.612", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P35724-1.631.631", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P35724-1.632.632", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P35724-1.633.633", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P35724-1.631.631", "start_pos": 631, "end_pos": 631, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "PSILRARRRSSANRTTNTSS", "down_seq": "SYKRRVKSEKKKMEENEKFK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "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": "Ser631" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P35724-1.612.612", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P35724-1.629.629", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P35724-1.632.632", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P35724-1.633.633", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P35724-1.632.632", "start_pos": 632, "end_pos": 632, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "SILRARRRSSANRTTNTSSS", "down_seq": "YKRRVKSEKKKMEENEKFKR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "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": "Ser632" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P35724-1.612.612", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P35724-1.629.629", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P35724-1.631.631", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P35724-1.633.633", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P35724-1.633.633", "start_pos": 633, "end_pos": 633, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "ILRARRRSSANRTTNTSSSS", "down_seq": "KRRVKSEKKKMEENEKFKRK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Tyr633" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P35724-1.629.629", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P35724-1.631.631", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P35724-1.632.632", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.782.782", "start_pos": 782, "end_pos": 782, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "SGASDEDAFPFDVYSKKTSY", "down_seq": "SAKSSVSSRSMSTSEASFNA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser782" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P35724-1.93.93", "start_pos": 93, "end_pos": 93, "uniprot_canonical_ac": "P35724-1", "length": 969, "uniprot_id": "MNR2_YEAST", "protein_name": "Manganese resistance protein MNR2", "refseq_ac": "NP_012859", "refseq_name": "putative Mg(2+) transporter MNR2", "gene_name": "MNR2", "gene_names_uniprotkb": "MNR2", "gene_names_refseq": "MNR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P35724", "url": "https://www.uniprot.org/uniprotkb/P35724" } ], "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": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724", "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": "WGMLHESDSTSNDIIKSEDP", "down_seq": "LKGAFIDHRPSMSQPREGPQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001547", "url": "https://www.yeastgenome.org/locus/S000001547" }, { "database": "iPTMnet", "id": "P35724", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P35724" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser93" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "463", "end_pos": "463" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "114", "end_pos": "114" }, { "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": "131", "end_pos": "131" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "373", "end_pos": "373" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "629", "end_pos": "629" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "632", "end_pos": "632" }, { "start_pos": "633", "end_pos": "633" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "upstream", "id": "P35724-1.104.104", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P36026-1.138.138", "start_pos": 138, "end_pos": 138, "uniprot_canonical_ac": "P36026-1", "length": 717, "uniprot_id": "UBP11_YEAST", "protein_name": "Ubiquitin carboxyl-terminal hydrolase 11", "refseq_ac": "NP_013024", "refseq_name": "ubiquitin-specific protease UBP11", "gene_name": "UBP11", "gene_names_uniprotkb": "UBP11", "gene_names_refseq": "UBP11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36026", "url": "https://www.uniprot.org/uniprotkb/P36026" } ], "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": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001806", "url": "https://www.yeastgenome.org/locus/S000001806", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026", "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": "DRYLAESNGICRTIKRKRAY", "down_seq": "LPLRPLPVHMASLSIHNKFD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001806", "url": "https://www.yeastgenome.org/locus/S000001806" }, { "database": "iPTMnet", "id": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser138" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "138", "end_pos": "138" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "526", "end_pos": "526" } ] } ], "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": "P36026-1.176.176", "start_pos": 176, "end_pos": 176, "uniprot_canonical_ac": "P36026-1", "length": 717, "uniprot_id": "UBP11_YEAST", "protein_name": "Ubiquitin carboxyl-terminal hydrolase 11", "refseq_ac": "NP_013024", "refseq_name": "ubiquitin-specific protease UBP11", "gene_name": "UBP11", "gene_names_uniprotkb": "UBP11", "gene_names_refseq": "UBP11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36026", "url": "https://www.uniprot.org/uniprotkb/P36026" } ], "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": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001806", "url": "https://www.yeastgenome.org/locus/S000001806", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026", "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": "KFDGSLHEIPNELTKPTNDN", "down_seq": "KEDIVRESNQIASSNKLEAG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001806", "url": "https://www.yeastgenome.org/locus/S000001806" }, { "database": "iPTMnet", "id": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser176" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "138", "end_pos": "138" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "526", "end_pos": "526" } ] } ], "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": "P36026-1.226.226", "start_pos": 226, "end_pos": 226, "uniprot_canonical_ac": "P36026-1", "length": 717, "uniprot_id": "UBP11_YEAST", "protein_name": "Ubiquitin carboxyl-terminal hydrolase 11", "refseq_ac": "NP_013024", "refseq_name": "ubiquitin-specific protease UBP11", "gene_name": "UBP11", "gene_names_uniprotkb": "UBP11", "gene_names_refseq": "UBP11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36026", "url": "https://www.uniprot.org/uniprotkb/P36026" } ], "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": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] } ], "crossref": [ { "id": "S000001806", "url": "https://www.yeastgenome.org/locus/S000001806", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026", "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": "EALSKPSYLKLSTGKDALFK", "down_seq": "LSSPATAPPVHSLEVSSQIR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001806", "url": "https://www.yeastgenome.org/locus/S000001806" }, { "database": "iPTMnet", "id": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ], "site_lbl": "Thr226" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "138", "end_pos": "138" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "526", "end_pos": "526" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P36026-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P36026-1.229.229", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P36026-1.238.238", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P36026-1.243.243", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P36026-1.228.228", "start_pos": 228, "end_pos": 228, "uniprot_canonical_ac": "P36026-1", "length": 717, "uniprot_id": "UBP11_YEAST", "protein_name": "Ubiquitin carboxyl-terminal hydrolase 11", "refseq_ac": "NP_013024", "refseq_name": "ubiquitin-specific protease UBP11", "gene_name": "UBP11", "gene_names_uniprotkb": "UBP11", "gene_names_refseq": "UBP11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36026", "url": "https://www.uniprot.org/uniprotkb/P36026" } ], "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": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026" } ], "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": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026" } ], "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": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026" } ], "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": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001806", "url": "https://www.yeastgenome.org/locus/S000001806", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026", "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": "LSKPSYLKLSTGKDALFKTL", "down_seq": "SPATAPPVHSLEVSSQIRDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001806", "url": "https://www.yeastgenome.org/locus/S000001806" }, { "database": "iPTMnet", "id": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026" }, { "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": "Ser228" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "138", "end_pos": "138" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "526", "end_pos": "526" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P36026-1.226.226", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P36026-1.229.229", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P36026-1.238.238", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P36026-1.243.243", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P36026-1.229.229", "start_pos": 229, "end_pos": 229, "uniprot_canonical_ac": "P36026-1", "length": 717, "uniprot_id": "UBP11_YEAST", "protein_name": "Ubiquitin carboxyl-terminal hydrolase 11", "refseq_ac": "NP_013024", "refseq_name": "ubiquitin-specific protease UBP11", "gene_name": "UBP11", "gene_names_uniprotkb": "UBP11", "gene_names_refseq": "UBP11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36026", "url": "https://www.uniprot.org/uniprotkb/P36026" } ], "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": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] } ], "crossref": [ { "id": "S000001806", "url": "https://www.yeastgenome.org/locus/S000001806", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026", "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": "SKPSYLKLSTGKDALFKTLS", "down_seq": "PATAPPVHSLEVSSQIRDSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001806", "url": "https://www.yeastgenome.org/locus/S000001806" }, { "database": "iPTMnet", "id": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ], "site_lbl": "Ser229" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "138", "end_pos": "138" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "526", "end_pos": "526" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P36026-1.226.226", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P36026-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P36026-1.238.238", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P36026-1.243.243", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P36026-1.238.238", "start_pos": 238, "end_pos": 238, "uniprot_canonical_ac": "P36026-1", "length": 717, "uniprot_id": "UBP11_YEAST", "protein_name": "Ubiquitin carboxyl-terminal hydrolase 11", "refseq_ac": "NP_013024", "refseq_name": "ubiquitin-specific protease UBP11", "gene_name": "UBP11", "gene_names_uniprotkb": "UBP11", "gene_names_refseq": "UBP11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36026", "url": "https://www.uniprot.org/uniprotkb/P36026" } ], "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": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001806", "url": "https://www.yeastgenome.org/locus/S000001806", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026", "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": "TGKDALFKTLSSPATAPPVH", "down_seq": "LEVSSQIRDSSQDSSSSLSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001806", "url": "https://www.yeastgenome.org/locus/S000001806" }, { "database": "iPTMnet", "id": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser238" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "138", "end_pos": "138" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "526", "end_pos": "526" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P36026-1.226.226", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P36026-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P36026-1.229.229", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P36026-1.243.243", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P36026-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P36026-1.255.255", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P36026-1.257.257", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P36026-1.243.243", "start_pos": 243, "end_pos": 243, "uniprot_canonical_ac": "P36026-1", "length": 717, "uniprot_id": "UBP11_YEAST", "protein_name": "Ubiquitin carboxyl-terminal hydrolase 11", "refseq_ac": "NP_013024", "refseq_name": "ubiquitin-specific protease UBP11", "gene_name": "UBP11", "gene_names_uniprotkb": "UBP11", "gene_names_refseq": "UBP11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36026", "url": "https://www.uniprot.org/uniprotkb/P36026" } ], "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": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001806", "url": "https://www.yeastgenome.org/locus/S000001806", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026", "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": "LFKTLSSPATAPPVHSLEVS", "down_seq": "QIRDSSQDSSSSLSKVEKPK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001806", "url": "https://www.yeastgenome.org/locus/S000001806" }, { "database": "iPTMnet", "id": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser243" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "138", "end_pos": "138" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "526", "end_pos": "526" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P36026-1.226.226", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P36026-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P36026-1.229.229", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P36026-1.238.238", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P36026-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P36026-1.255.255", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P36026-1.257.257", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P36026-1.253.253", "start_pos": 253, "end_pos": 253, "uniprot_canonical_ac": "P36026-1", "length": 717, "uniprot_id": "UBP11_YEAST", "protein_name": "Ubiquitin carboxyl-terminal hydrolase 11", "refseq_ac": "NP_013024", "refseq_name": "ubiquitin-specific protease UBP11", "gene_name": "UBP11", "gene_names_uniprotkb": "UBP11", "gene_names_refseq": "UBP11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36026", "url": "https://www.uniprot.org/uniprotkb/P36026" } ], "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": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] } ], "crossref": [ { "id": "S000001806", "url": "https://www.yeastgenome.org/locus/S000001806", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026", "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": "APPVHSLEVSSQIRDSSQDS", "down_seq": "SSLSKVEKPKEEEGKIEAIE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001806", "url": "https://www.yeastgenome.org/locus/S000001806" }, { "database": "iPTMnet", "id": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ], "site_lbl": "Ser253" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "138", "end_pos": "138" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "526", "end_pos": "526" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P36026-1.238.238", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P36026-1.243.243", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P36026-1.255.255", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P36026-1.257.257", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P36026-1.255.255", "start_pos": 255, "end_pos": 255, "uniprot_canonical_ac": "P36026-1", "length": 717, "uniprot_id": "UBP11_YEAST", "protein_name": "Ubiquitin carboxyl-terminal hydrolase 11", "refseq_ac": "NP_013024", "refseq_name": "ubiquitin-specific protease UBP11", "gene_name": "UBP11", "gene_names_uniprotkb": "UBP11", "gene_names_refseq": "UBP11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36026", "url": "https://www.uniprot.org/uniprotkb/P36026" } ], "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": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001806", "url": "https://www.yeastgenome.org/locus/S000001806", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026", "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": "PVHSLEVSSQIRDSSQDSSS", "down_seq": "LSKVEKPKEEEGKIEAIESS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001806", "url": "https://www.yeastgenome.org/locus/S000001806" }, { "database": "iPTMnet", "id": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser255" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "138", "end_pos": "138" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "526", "end_pos": "526" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P36026-1.238.238", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P36026-1.243.243", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P36026-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P36026-1.257.257", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P36026-1.257.257", "start_pos": 257, "end_pos": 257, "uniprot_canonical_ac": "P36026-1", "length": 717, "uniprot_id": "UBP11_YEAST", "protein_name": "Ubiquitin carboxyl-terminal hydrolase 11", "refseq_ac": "NP_013024", "refseq_name": "ubiquitin-specific protease UBP11", "gene_name": "UBP11", "gene_names_uniprotkb": "UBP11", "gene_names_refseq": "UBP11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36026", "url": "https://www.uniprot.org/uniprotkb/P36026" } ], "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": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] } ], "crossref": [ { "id": "S000001806", "url": "https://www.yeastgenome.org/locus/S000001806", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026", "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": "HSLEVSSQIRDSSQDSSSSL", "down_seq": "KVEKPKEEEGKIEAIESSAP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001806", "url": "https://www.yeastgenome.org/locus/S000001806" }, { "database": "iPTMnet", "id": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ], "site_lbl": "Ser257" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "138", "end_pos": "138" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "526", "end_pos": "526" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P36026-1.238.238", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P36026-1.243.243", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P36026-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P36026-1.255.255", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P36026-1.507.507", "start_pos": 507, "end_pos": 507, "uniprot_canonical_ac": "P36026-1", "length": 717, "uniprot_id": "UBP11_YEAST", "protein_name": "Ubiquitin carboxyl-terminal hydrolase 11", "refseq_ac": "NP_013024", "refseq_name": "ubiquitin-specific protease UBP11", "gene_name": "UBP11", "gene_names_uniprotkb": "UBP11", "gene_names_refseq": "UBP11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36026", "url": "https://www.uniprot.org/uniprotkb/P36026" } ], "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": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] } ], "crossref": [ { "id": "S000001806", "url": "https://www.yeastgenome.org/locus/S000001806", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026", "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": "LYSFTSKSRKIKLEDCINLF", "down_seq": "GDEELSGDNAWDCPNCRITD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001806", "url": "https://www.yeastgenome.org/locus/S000001806" }, { "database": "iPTMnet", "id": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ], "site_lbl": "Thr507" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "138", "end_pos": "138" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "526", "end_pos": "526" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "upstream", "id": "P36026-1.526.526", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P36026-1.526.526", "start_pos": 526, "end_pos": 526, "uniprot_canonical_ac": "P36026-1", "length": 717, "uniprot_id": "UBP11_YEAST", "protein_name": "Ubiquitin carboxyl-terminal hydrolase 11", "refseq_ac": "NP_013024", "refseq_name": "ubiquitin-specific protease UBP11", "gene_name": "UBP11", "gene_names_uniprotkb": "UBP11", "gene_names_refseq": "UBP11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36026", "url": "https://www.uniprot.org/uniprotkb/P36026" } ], "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": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] } ], "crossref": [ { "id": "S000001806", "url": "https://www.yeastgenome.org/locus/S000001806", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026", "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": "FTGDEELSGDNAWDCPNCRI", "down_seq": "DSKSKKEEITSQKKKSTIFG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001806", "url": "https://www.yeastgenome.org/locus/S000001806" }, { "database": "iPTMnet", "id": "P36026", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36026" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ], "site_lbl": "Thr526" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "138", "end_pos": "138" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "526", "end_pos": "526" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P36026-1.507.507", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P36029-1.537.537", "start_pos": 537, "end_pos": 537, "uniprot_canonical_ac": "P36029-1", "length": 618, "uniprot_id": "TPO5_YEAST", "protein_name": "Polyamine transporter TPO5", "refseq_ac": "NP_012747", "refseq_name": "Tpo5p", "gene_name": "TPO5", "gene_names_uniprotkb": "TPO5; YKL639", "gene_names_refseq": "TPO5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36029", "url": "https://www.uniprot.org/uniprotkb/P36029" } ], "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": "P36029", "url": "https://www.uniprot.org/uniprotkb/P36029" }, { "database": "iPTMnet", "id": "P36029", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36029" } ], "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": "P36029", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36029" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P36029", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36029", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001657", "url": "https://www.yeastgenome.org/locus/S000001657", "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": "KWGKYNFRLPLADDIKAPIP", "down_seq": "DAEETVFELEDSNVEHTLNS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P36029", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36029" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001657", "url": "https://www.yeastgenome.org/locus/S000001657" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser537" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "537", "end_pos": "537" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "603", "end_pos": "603" } ] } ], "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": "P36029-1.564.564", "start_pos": 564, "end_pos": 564, "uniprot_canonical_ac": "P36029-1", "length": 618, "uniprot_id": "TPO5_YEAST", "protein_name": "Polyamine transporter TPO5", "refseq_ac": "NP_012747", "refseq_name": "Tpo5p", "gene_name": "TPO5", "gene_names_uniprotkb": "TPO5; YKL639", "gene_names_refseq": "TPO5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36029", "url": "https://www.uniprot.org/uniprotkb/P36029" } ], "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": "P36029", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36029" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P36029", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36029", "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": "FELEDSNVEHTLNSGTTVKE", "down_seq": "VENNSEEGFIKVHPKSSTEN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P36029", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36029" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser564" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "537", "end_pos": "537" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "603", "end_pos": "603" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P36029-1.569.569", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P36029-1.569.569", "start_pos": 569, "end_pos": 569, "uniprot_canonical_ac": "P36029-1", "length": 618, "uniprot_id": "TPO5_YEAST", "protein_name": "Polyamine transporter TPO5", "refseq_ac": "NP_012747", "refseq_name": "Tpo5p", "gene_name": "TPO5", "gene_names_uniprotkb": "TPO5; YKL639", "gene_names_refseq": "TPO5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36029", "url": "https://www.uniprot.org/uniprotkb/P36029" } ], "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": "P36029", "url": "https://www.uniprot.org/uniprotkb/P36029" }, { "database": "iPTMnet", "id": "P36029", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36029" } ], "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": "P36029", "url": "https://www.uniprot.org/uniprotkb/P36029" }, { "database": "iPTMnet", "id": "P36029", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36029" } ], "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": "P36029", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36029" } ], "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": "P36029", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36029" } ], "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": "P36029", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36029" } ], "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": "P36029", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36029" } ], "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": "P36029", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36029" } ], "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": "P36029", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36029" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P36029", "url": "https://www.uniprot.org/uniprotkb/P36029", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P36029", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36029", "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": "S000001657", "url": "https://www.yeastgenome.org/locus/S000001657", "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": "SNVEHTLNSGTTVKESVENN", "down_seq": "EEGFIKVHPKSSTENPFEEN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P36029", "url": "https://www.uniprot.org/uniprotkb/P36029" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P36029", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36029" }, { "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": "S000001657", "url": "https://www.yeastgenome.org/locus/S000001657" }, { "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": "Ser569" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "537", "end_pos": "537" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "603", "end_pos": "603" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P36029-1.564.564", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P36029-1.603.603", "start_pos": 603, "end_pos": 603, "uniprot_canonical_ac": "P36029-1", "length": 618, "uniprot_id": "TPO5_YEAST", "protein_name": "Polyamine transporter TPO5", "refseq_ac": "NP_012747", "refseq_name": "Tpo5p", "gene_name": "TPO5", "gene_names_uniprotkb": "TPO5; YKL639", "gene_names_refseq": "TPO5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36029", "url": "https://www.uniprot.org/uniprotkb/P36029" } ], "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": "P36029", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36029" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001657", "url": "https://www.yeastgenome.org/locus/S000001657", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36029", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36029", "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": "ENPFEENEENVITDYGDEHH", "down_seq": "AEQEFDLADDRRYDI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001657", "url": "https://www.yeastgenome.org/locus/S000001657" }, { "database": "iPTMnet", "id": "P36029", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36029" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr603" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "537", "end_pos": "537" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "569", "end_pos": "569" }, { "start_pos": "603", "end_pos": "603" } ] } ], "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": "P36038-1.57.57", "start_pos": 57, "end_pos": 57, "uniprot_canonical_ac": "P36038-1", "length": 271, "uniprot_id": "CBT1_YEAST", "protein_name": "Cytochrome b termination protein 1", "refseq_ac": "NP_012714", "refseq_name": "Cbt1p", "gene_name": "CBT1", "gene_names_uniprotkb": "CBT1; SOC1", "gene_names_refseq": "CBT1; SOC1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36038", "url": "https://www.uniprot.org/uniprotkb/P36038" } ], "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": "P36038", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36038" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P36038", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36038", "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": "RKINYKLRESKYQEYLNEYN", "down_seq": "FVLYDWENSGAGSLVDSSYN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P36038", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36038" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Thr57" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "57", "end_pos": "57" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P36038-1.61.61", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P36038-1.66.66", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P36038-1.61.61", "start_pos": 61, "end_pos": 61, "uniprot_canonical_ac": "P36038-1", "length": 271, "uniprot_id": "CBT1_YEAST", "protein_name": "Cytochrome b termination protein 1", "refseq_ac": "NP_012714", "refseq_name": "Cbt1p", "gene_name": "CBT1", "gene_names_uniprotkb": "CBT1; SOC1", "gene_names_refseq": "CBT1; SOC1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36038", "url": "https://www.uniprot.org/uniprotkb/P36038" } ], "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": "P36038", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36038" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P36038", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36038", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "YKLRESKYQEYLNEYNTFVL", "down_seq": "DWENSGAGSLVDSSYNLPSL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P36038", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36038" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Tyr61" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "57", "end_pos": "57" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P36038-1.57.57", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P36038-1.66.66", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P36038-1.66.66", "start_pos": 66, "end_pos": 66, "uniprot_canonical_ac": "P36038-1", "length": 271, "uniprot_id": "CBT1_YEAST", "protein_name": "Cytochrome b termination protein 1", "refseq_ac": "NP_012714", "refseq_name": "Cbt1p", "gene_name": "CBT1", "gene_names_uniprotkb": "CBT1; SOC1", "gene_names_refseq": "CBT1; SOC1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36038", "url": "https://www.uniprot.org/uniprotkb/P36038" } ], "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": "P36038", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36038" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P36038", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36038", "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": "SKYQEYLNEYNTFVLYDWEN", "down_seq": "GAGSLVDSSYNLPSLWKEFI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P36038", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36038" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Ser66" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "57", "end_pos": "57" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P36038-1.57.57", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P36038-1.61.61", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P36044-1.519.519", "start_pos": 519, "end_pos": 519, "uniprot_canonical_ac": "P36044-1", "length": 1178, "uniprot_id": "MNN4_YEAST", "protein_name": "Mannosyltransferase regulator 4", "refseq_ac": "NP_012721", "refseq_name": "Mnn4p", "gene_name": "MNN4", "gene_names_uniprotkb": "MNN4; YKL200C", "gene_names_refseq": "MNN4; YKL200C", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36044", "url": "https://www.uniprot.org/uniprotkb/P36044" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Both Svp26 and Mnn6 are required for the efficient ER exit of Mnn4 in Saccharomyces cerevisiae.", "journal": "The Journal of general and applied microbiology", "date": "2019-12-19", "authors": "Noda Yoichi, Arai Seisuke, Wada Ikuo, Yoda Koji", "evidence": [ { "database": "UniProtKB", "id": "P36044", "url": "https://www.uniprot.org/uniprotkb/P36044" } ], "reference": [ { "type": "PubMed", "id": "30842360", "url": "https://glygen.org/publication/PubMed/30842360" } ] } ], "crossref": [ { "id": "P36044", "url": "https://www.uniprot.org/uniprotkb/P36044", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "30842360", "url": "https://glygen.org/publication/PubMed/30842360", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "LSHGTLYGYLYNGMAFPWDN", "down_seq": "FDLQMPIKHLQLLSQYFNQS", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Impaired the function.", "evidence": [ { "database": "UniProtKB", "id": "P36044", "url": "https://www.uniprot.org/uniprotkb/P36044" }, { "database": "PubMed", "id": "30842360", "url": "https://glygen.org/publication/PubMed/30842360" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "519", "end_pos": "519" } ] } ], "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": "P36078-1.4.4", "start_pos": 4, "end_pos": 4, "uniprot_canonical_ac": "P36078-1", "length": 116, "uniprot_id": "HOT13_YEAST", "protein_name": "Helper of Tim protein 13", "refseq_ac": "NP_012839", "refseq_name": "Hot13p", "gene_name": "HOT13", "gene_names_uniprotkb": "HOT13", "gene_names_refseq": "HOT13", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36078", "url": "https://www.uniprot.org/uniprotkb/P36078" } ], "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": "P36078", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36078" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001567", "url": "https://www.yeastgenome.org/locus/S000001567", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36078", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36078", "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": "MIE", "down_seq": "AIYGKTVDDQSRCVHWHLPK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001567", "url": "https://www.yeastgenome.org/locus/S000001567" }, { "database": "iPTMnet", "id": "P36078", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36078" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr4" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "4", "end_pos": "4" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P36078-1.7.7", "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": "P36078-1.7.7", "start_pos": 7, "end_pos": 7, "uniprot_canonical_ac": "P36078-1", "length": 116, "uniprot_id": "HOT13_YEAST", "protein_name": "Helper of Tim protein 13", "refseq_ac": "NP_012839", "refseq_name": "Hot13p", "gene_name": "HOT13", "gene_names_uniprotkb": "HOT13", "gene_names_refseq": "HOT13", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36078", "url": "https://www.uniprot.org/uniprotkb/P36078" } ], "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": "P36078", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36078" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001567", "url": "https://www.yeastgenome.org/locus/S000001567", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36078", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36078", "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": "MIETAI", "down_seq": "GKTVDDQSRCVHWHLPKDVI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001567", "url": "https://www.yeastgenome.org/locus/S000001567" }, { "database": "iPTMnet", "id": "P36078", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36078" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr7" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "4", "end_pos": "4" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P36078-1.4.4", "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": "P36090-1.372.372", "start_pos": 372, "end_pos": 372, "uniprot_canonical_ac": "P36090-1", "length": 516, "uniprot_id": "ANR2_YEAST", "protein_name": "Uncharacterized protein ANR2", "refseq_ac": "NP_012877", "refseq_name": "Anr2p", "gene_name": "ANR2", "gene_names_uniprotkb": "ANR2; YKL260", "gene_names_refseq": "ANR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36090", "url": "https://www.uniprot.org/uniprotkb/P36090" } ], "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": "P36090", "url": "https://www.uniprot.org/uniprotkb/P36090" }, { "database": "iPTMnet", "id": "P36090", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36090" } ], "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": "P36090", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36090" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P36090", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36090", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001530", "url": "https://www.yeastgenome.org/locus/S000001530", "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": "TPLDLEVYEKLILGELQEDA", "down_seq": "TNATCRHHEVTEPISWLQFL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P36090", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36090" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001530", "url": "https://www.yeastgenome.org/locus/S000001530" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser372" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "372", "end_pos": "372" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "422", "end_pos": "422" } ] } ], "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": "P36090-1.3.3", "start_pos": 3, "end_pos": 3, "uniprot_canonical_ac": "P36090-1", "length": 516, "uniprot_id": "ANR2_YEAST", "protein_name": "Uncharacterized protein ANR2", "refseq_ac": "NP_012877", "refseq_name": "Anr2p", "gene_name": "ANR2", "gene_names_uniprotkb": "ANR2; YKL260", "gene_names_refseq": "ANR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36090", "url": "https://www.uniprot.org/uniprotkb/P36090" } ], "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": "P36090", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36090" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P36090", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36090", "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": "MN", "down_seq": "GGEEPTIKPNVFNITQLLNS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P36090", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36090" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser3" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "372", "end_pos": "372" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "422", "end_pos": "422" } ] } ], "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": "P36090-1.422.422", "start_pos": 422, "end_pos": 422, "uniprot_canonical_ac": "P36090-1", "length": 516, "uniprot_id": "ANR2_YEAST", "protein_name": "Uncharacterized protein ANR2", "refseq_ac": "NP_012877", "refseq_name": "Anr2p", "gene_name": "ANR2", "gene_names_uniprotkb": "ANR2; YKL260", "gene_names_refseq": "ANR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36090", "url": "https://www.uniprot.org/uniprotkb/P36090" } ], "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": "P36090", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36090" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001530", "url": "https://www.yeastgenome.org/locus/S000001530", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36090", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36090", "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": "AGYLVAPYHLANNFKIPRHV", "down_seq": "GPEPNNSEIQIAENLVRYFH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001530", "url": "https://www.yeastgenome.org/locus/S000001530" }, { "database": "iPTMnet", "id": "P36090", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36090" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser422" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "372", "end_pos": "372" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "422", "end_pos": "422" } ] } ], "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": "P36114-1.103.103", "start_pos": 103, "end_pos": 103, "uniprot_canonical_ac": "P36114-1", "length": 725, "uniprot_id": "YKR18_YEAST", "protein_name": "IML2-like protein YKR018C", "refseq_ac": "NP_012943", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114", "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": "GFEAEEMKKASATLAKAEAL", "down_seq": "LKSRERAQKIGLKSSSLYPP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ], "site_lbl": "Ser103" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "525", "end_pos": "525" }, { "start_pos": "526", "end_pos": "526" } ] } ], "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": "P36114-1.17.17", "start_pos": 17, "end_pos": 17, "uniprot_canonical_ac": "P36114-1", "length": 725, "uniprot_id": "YKR18_YEAST", "protein_name": "IML2-like protein YKR018C", "refseq_ac": "NP_012943", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114", "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": "MFKVFGFGAKEEIPEL", "down_seq": "QEEKTKAILKQAHDFEQALR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726" }, { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser17" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "525", "end_pos": "525" }, { "start_pos": "526", "end_pos": "526" } ] } ], "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": "P36114-1.187.187", "start_pos": 187, "end_pos": 187, "uniprot_canonical_ac": "P36114-1", "length": 725, "uniprot_id": "YKR18_YEAST", "protein_name": "IML2-like protein YKR018C", "refseq_ac": "NP_012943", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114", "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": "EILETIKAANKAKKLKITSG", "down_seq": "EDKESTPATFITGGDAFNSV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726" }, { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser187" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "525", "end_pos": "525" }, { "start_pos": "526", "end_pos": "526" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P36114-1.192.192", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P36114-1.193.193", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P36114-1.196.196", "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": "P36114-1.192.192", "start_pos": 192, "end_pos": 192, "uniprot_canonical_ac": "P36114-1", "length": 725, "uniprot_id": "YKR18_YEAST", "protein_name": "IML2-like protein YKR018C", "refseq_ac": "NP_012943", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" } ], "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": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" }, { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726", "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": "IKAANKAKKLKITSGSEDKE", "down_seq": "TPATFITGGDAFNSVDIPYE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser192" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "525", "end_pos": "525" }, { "start_pos": "526", "end_pos": "526" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P36114-1.187.187", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P36114-1.193.193", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P36114-1.196.196", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P36114-1.193.193", "start_pos": 193, "end_pos": 193, "uniprot_canonical_ac": "P36114-1", "length": 725, "uniprot_id": "YKR18_YEAST", "protein_name": "IML2-like protein YKR018C", "refseq_ac": "NP_012943", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" } ], "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": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" }, { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726", "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": "T", "start_aa": "T", "up_seq": "KAANKAKKLKITSGSEDKES", "down_seq": "PATFITGGDAFNSVDIPYEL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr193" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "525", "end_pos": "525" }, { "start_pos": "526", "end_pos": "526" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P36114-1.187.187", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P36114-1.192.192", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P36114-1.196.196", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P36114-1.196.196", "start_pos": 196, "end_pos": 196, "uniprot_canonical_ac": "P36114-1", "length": 725, "uniprot_id": "YKR18_YEAST", "protein_name": "IML2-like protein YKR018C", "refseq_ac": "NP_012943", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" } ], "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": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" }, { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114", "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": "NKAKKLKITSGSEDKESTPA", "down_seq": "FITGGDAFNSVDIPYELTPE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726" }, { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr196" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "525", "end_pos": "525" }, { "start_pos": "526", "end_pos": "526" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P36114-1.187.187", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P36114-1.192.192", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P36114-1.193.193", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P36114-1.239.239", "start_pos": 239, "end_pos": 239, "uniprot_canonical_ac": "P36114-1", "length": 725, "uniprot_id": "YKR18_YEAST", "protein_name": "IML2-like protein YKR018C", "refseq_ac": "NP_012943", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114", "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": "KDKDLLQFAEQIHSMRTERL", "down_seq": "GAHIGNSPAINRLRGELGLQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726" }, { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser239" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "525", "end_pos": "525" }, { "start_pos": "526", "end_pos": "526" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "P36114-1.246.246", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P36114-1.246.246", "start_pos": 246, "end_pos": 246, "uniprot_canonical_ac": "P36114-1", "length": 725, "uniprot_id": "YKR18_YEAST", "protein_name": "IML2-like protein YKR018C", "refseq_ac": "NP_012943", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" } ], "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": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" }, { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" }, { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726", "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": "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": "FAEQIHSMRTERLSGAHIGN", "down_seq": "PAINRLRGELGLQAMEDLPE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726" }, { "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" } ], "site_lbl": "Ser246" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "525", "end_pos": "525" }, { "start_pos": "526", "end_pos": "526" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P36114-1.239.239", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P36114-1.374.374", "start_pos": 374, "end_pos": 374, "uniprot_canonical_ac": "P36114-1", "length": 725, "uniprot_id": "YKR18_YEAST", "protein_name": "IML2-like protein YKR018C", "refseq_ac": "NP_012943", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" } ], "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": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" }, { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114", "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": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726", "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": "YDGPFQFTDDDFDIPAAVKD", "down_seq": "SNSEDSEDEEMDGPTLLHPG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" }, { "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": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726" }, { "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": "Ser374" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "525", "end_pos": "525" }, { "start_pos": "526", "end_pos": "526" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P36114-1.375.375", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P36114-1.377.377", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P36114-1.380.380", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P36114-1.389.389", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P36114-1.375.375", "start_pos": 375, "end_pos": 375, "uniprot_canonical_ac": "P36114-1", "length": 725, "uniprot_id": "YKR18_YEAST", "protein_name": "IML2-like protein YKR018C", "refseq_ac": "NP_012943", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" } ], "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": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" }, { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" }, { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726", "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" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DGPFQFTDDDFDIPAAVKDS", "down_seq": "NSEDSEDEEMDGPTLLHPGK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726" }, { "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": "Ser375" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "525", "end_pos": "525" }, { "start_pos": "526", "end_pos": "526" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P36114-1.374.374", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P36114-1.377.377", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P36114-1.380.380", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P36114-1.389.389", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P36114-1.377.377", "start_pos": 377, "end_pos": 377, "uniprot_canonical_ac": "P36114-1", "length": 725, "uniprot_id": "YKR18_YEAST", "protein_name": "IML2-like protein YKR018C", "refseq_ac": "NP_012943", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" } ], "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": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" }, { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" }, { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" }, { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114", "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": "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": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726", "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": "PFQFTDDDFDIPAAVKDSSN", "down_seq": "EDSEDEEMDGPTLLHPGKIL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" }, { "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": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726" }, { "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": "Ser377" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "525", "end_pos": "525" }, { "start_pos": "526", "end_pos": "526" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P36114-1.374.374", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P36114-1.375.375", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P36114-1.380.380", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P36114-1.389.389", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P36114-1.380.380", "start_pos": 380, "end_pos": 380, "uniprot_canonical_ac": "P36114-1", "length": 725, "uniprot_id": "YKR18_YEAST", "protein_name": "IML2-like protein YKR018C", "refseq_ac": "NP_012943", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" } ], "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": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" }, { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" }, { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" }, { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114", "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114", "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": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726", "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": "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": "FTDDDFDIPAAVKDSSNSED", "down_seq": "EDEEMDGPTLLHPGKILEDA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" }, { "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" }, { "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": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726" }, { "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": "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": "Ser380" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "525", "end_pos": "525" }, { "start_pos": "526", "end_pos": "526" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P36114-1.374.374", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P36114-1.375.375", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P36114-1.377.377", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P36114-1.389.389", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 15 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P36114-1.389.389", "start_pos": 389, "end_pos": 389, "uniprot_canonical_ac": "P36114-1", "length": 725, "uniprot_id": "YKR18_YEAST", "protein_name": "IML2-like protein YKR018C", "refseq_ac": "NP_012943", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" } ], "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": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" }, { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114", "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": "AAVKDSSNSEDSEDEEMDGP", "down_seq": "LLHPGKILEDALLQSRALFP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726" }, { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr389" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "525", "end_pos": "525" }, { "start_pos": "526", "end_pos": "526" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P36114-1.374.374", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P36114-1.375.375", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P36114-1.377.377", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P36114-1.380.380", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P36114-1.525.525", "start_pos": 525, "end_pos": 525, "uniprot_canonical_ac": "P36114-1", "length": 725, "uniprot_id": "YKR18_YEAST", "protein_name": "IML2-like protein YKR018C", "refseq_ac": "NP_012943", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114", "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": "GLMKSDKKDEYQKKAEELIF", "down_seq": "SVNLLGKKTFKSKNLPLDRF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726" }, { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Thr525" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "525", "end_pos": "525" }, { "start_pos": "526", "end_pos": "526" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P36114-1.526.526", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P36114-1.526.526", "start_pos": 526, "end_pos": 526, "uniprot_canonical_ac": "P36114-1", "length": 725, "uniprot_id": "YKR18_YEAST", "protein_name": "IML2-like protein YKR018C", "refseq_ac": "NP_012943", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36114", "url": "https://www.uniprot.org/uniprotkb/P36114" } ], "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": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114", "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": "LMKSDKKDEYQKKAEELIFT", "down_seq": "VNLLGKKTFKSKNLPLDRFI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001726", "url": "https://www.yeastgenome.org/locus/S000001726" }, { "database": "iPTMnet", "id": "P36114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36114" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser526" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "374", "end_pos": "374" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "525", "end_pos": "525" }, { "start_pos": "526", "end_pos": "526" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P36114-1.525.525", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P36125-1.8.8", "start_pos": 8, "end_pos": 8, "uniprot_canonical_ac": "P36125-1", "length": 273, "uniprot_id": "GMH1_YEAST", "protein_name": "Protein GMH1", "refseq_ac": "NP_012955", "refseq_name": "Gmh1p", "gene_name": "GMH1", "gene_names_uniprotkb": "GMH1; MSG1", "gene_names_refseq": "GMH1; MSG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36125", "url": "https://www.uniprot.org/uniprotkb/P36125" } ], "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": "P36125", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36125" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001738", "url": "https://www.yeastgenome.org/locus/S000001738", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36125", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36125", "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": "MSYLPTY", "down_seq": "NDLPAGPQGQRRRNNGNEND", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001738", "url": "https://www.yeastgenome.org/locus/S000001738" }, { "database": "iPTMnet", "id": "P36125", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36125" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser8" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "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": "P36137-1.435.435", "start_pos": 435, "end_pos": 435, "uniprot_canonical_ac": "P36137-1", "length": 443, "uniprot_id": "UIP5_YEAST", "protein_name": "Protein UIP5", "refseq_ac": "NP_012970", "refseq_name": "Uip5p", "gene_name": "UIP5", "gene_names_uniprotkb": "UIP5", "gene_names_refseq": "UIP5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36137", "url": "https://www.uniprot.org/uniprotkb/P36137" } ], "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": "P36137", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36137" } ], "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": "P36137", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36137" } ], "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": "P36137", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36137" } ], "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": "P36137", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36137" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001752", "url": "https://www.yeastgenome.org/locus/S000001752", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36137", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36137", "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": "CIRVFQRRFKKIRSRRKRAG", "down_seq": "HSVGLLPM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001752", "url": "https://www.yeastgenome.org/locus/S000001752" }, { "database": "iPTMnet", "id": "P36137", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36137" }, { "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": "Ser435" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "49", "end_pos": "49" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P36137-1.437.437", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P36137-1.437.437", "start_pos": 437, "end_pos": 437, "uniprot_canonical_ac": "P36137-1", "length": 443, "uniprot_id": "UIP5_YEAST", "protein_name": "Protein UIP5", "refseq_ac": "NP_012970", "refseq_name": "Uip5p", "gene_name": "UIP5", "gene_names_uniprotkb": "UIP5", "gene_names_refseq": "UIP5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36137", "url": "https://www.uniprot.org/uniprotkb/P36137" } ], "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": "P36137", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36137" } ], "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": "P36137", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36137" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001752", "url": "https://www.yeastgenome.org/locus/S000001752", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36137", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36137", "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": "RVFQRRFKKIRSRRKRAGSH", "down_seq": "VGLLPM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001752", "url": "https://www.yeastgenome.org/locus/S000001752" }, { "database": "iPTMnet", "id": "P36137", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36137" }, { "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": "phosphorylation", "site_list": [ { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "49", "end_pos": "49" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P36137-1.435.435", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P36137-1.49.49", "start_pos": 49, "end_pos": 49, "uniprot_canonical_ac": "P36137-1", "length": 443, "uniprot_id": "UIP5_YEAST", "protein_name": "Protein UIP5", "refseq_ac": "NP_012970", "refseq_name": "Uip5p", "gene_name": "UIP5", "gene_names_uniprotkb": "UIP5", "gene_names_refseq": "UIP5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36137", "url": "https://www.uniprot.org/uniprotkb/P36137" } ], "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": "P36137", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36137" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001752", "url": "https://www.yeastgenome.org/locus/S000001752", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36137", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36137", "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": "IYLNNGDQYHTETSPFTRGR", "down_seq": "HVTRVPNHDASLSIPFLDKI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001752", "url": "https://www.yeastgenome.org/locus/S000001752" }, { "database": "iPTMnet", "id": "P36137", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36137" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser49" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "49", "end_pos": "49" } ] } ], "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": "P36139-1.241.241", "start_pos": 241, "end_pos": 241, "uniprot_canonical_ac": "P36139-1", "length": 283, "uniprot_id": "PET10_YEAST", "protein_name": "Protein PET10", "refseq_ac": "NP_012972", "refseq_name": "Pln1p", "gene_name": "PET10", "gene_names_uniprotkb": "PET10", "gene_names_refseq": "PET10; PLN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36139", "url": "https://www.uniprot.org/uniprotkb/P36139" } ], "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": "P36139", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P36139" }, { "database": "O-GlcNAc Atlas", "id": "P36139", "url": "https://oglcnac.org/atlas/detail/P36139" } ], "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": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" } ], "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": "P36139", "url": "https://oglcnac.org/atlas/detail/P36139", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139", "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": "TKTKLNETYQRFTTVYENNL", "down_seq": "KSESVPKAIVSTGLDLGNAT", "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": "Ser241", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P36139", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P36139" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754" }, { "database": "iPTMnet", "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser241" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "281", "end_pos": "281" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "152", "end_pos": "152" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P36139-1.243.243", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P36139-1.252.252", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P36139-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P36139-1.261.261", "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": "P36139-1.252.252", "start_pos": 252, "end_pos": 252, "uniprot_canonical_ac": "P36139-1", "length": 283, "uniprot_id": "PET10_YEAST", "protein_name": "Protein PET10", "refseq_ac": "NP_012972", "refseq_name": "Pln1p", "gene_name": "PET10", "gene_names_uniprotkb": "PET10", "gene_names_refseq": "PET10; PLN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36139", "url": "https://www.uniprot.org/uniprotkb/P36139" } ], "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": "P36139", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P36139" }, { "database": "O-GlcNAc Atlas", "id": "P36139", "url": "https://oglcnac.org/atlas/detail/P36139" } ], "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": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" } ], "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": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" } ], "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": "P36139", "url": "https://oglcnac.org/atlas/detail/P36139", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139", "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": "FTTVYENNLSKSESVPKAIV", "down_seq": "TGLDLGNATIEKLKASREDQ", "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": "Ser252", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P36139", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P36139" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754" }, { "database": "iPTMnet", "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser252" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "281", "end_pos": "281" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "152", "end_pos": "152" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P36139-1.241.241", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P36139-1.243.243", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P36139-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P36139-1.261.261", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P36139-1.268.268", "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": "P36139-1.275.275", "start_pos": 275, "end_pos": 275, "uniprot_canonical_ac": "P36139-1", "length": 283, "uniprot_id": "PET10_YEAST", "protein_name": "Protein PET10", "refseq_ac": "NP_012972", "refseq_name": "Pln1p", "gene_name": "PET10", "gene_names_uniprotkb": "PET10", "gene_names_refseq": "PET10; PLN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36139", "url": "https://www.uniprot.org/uniprotkb/P36139" } ], "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": "P36139", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P36139" }, { "database": "O-GlcNAc Atlas", "id": "P36139", "url": "https://oglcnac.org/atlas/detail/P36139" } ], "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": "P36139", "url": "https://oglcnac.org/atlas/detail/P36139", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LDLGNATIEKLKASREDQTN", "down_seq": "KPAAVSTN", "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": "Ser275", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P36139", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P36139" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "281", "end_pos": "281" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "152", "end_pos": "152" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P36139-1.261.261", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P36139-1.268.268", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P36139-1.281.281", "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": "P36139-1.281.281", "start_pos": 281, "end_pos": 281, "uniprot_canonical_ac": "P36139-1", "length": 283, "uniprot_id": "PET10_YEAST", "protein_name": "Protein PET10", "refseq_ac": "NP_012972", "refseq_name": "Pln1p", "gene_name": "PET10", "gene_names_uniprotkb": "PET10", "gene_names_refseq": "PET10; PLN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36139", "url": "https://www.uniprot.org/uniprotkb/P36139" } ], "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": "P36139", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P36139" }, { "database": "O-GlcNAc Atlas", "id": "P36139", "url": "https://oglcnac.org/atlas/detail/P36139" } ], "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": "P36139", "url": "https://oglcnac.org/atlas/detail/P36139", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TIEKLKASREDQTNSKPAAV", "down_seq": "TN", "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": "Ser281", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P36139", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P36139" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "281", "end_pos": "281" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "152", "end_pos": "152" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P36139-1.261.261", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P36139-1.268.268", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P36139-1.275.275", "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": "P36139-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "P36139-1", "length": 283, "uniprot_id": "PET10_YEAST", "protein_name": "Protein PET10", "refseq_ac": "NP_012972", "refseq_name": "Pln1p", "gene_name": "PET10", "gene_names_uniprotkb": "PET10", "gene_names_refseq": "PET10; PLN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36139", "url": "https://www.uniprot.org/uniprotkb/P36139" } ], "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": "P36139", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P36139" }, { "database": "O-GlcNAc Atlas", "id": "P36139", "url": "https://oglcnac.org/atlas/detail/P36139" } ], "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": "P36139", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P36139", "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": "P36139", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P36139" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "281", "end_pos": "281" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "152", "end_pos": "152" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P36139-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P36139-1.5.5", "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": "P36139-1.152.152", "start_pos": 152, "end_pos": 152, "uniprot_canonical_ac": "P36139-1", "length": 283, "uniprot_id": "PET10_YEAST", "protein_name": "Protein PET10", "refseq_ac": "NP_012972", "refseq_name": "Pln1p", "gene_name": "PET10", "gene_names_uniprotkb": "PET10", "gene_names_refseq": "PET10; PLN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36139", "url": "https://www.uniprot.org/uniprotkb/P36139" } ], "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": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139", "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": "REFLIKPLHLQGSTASKEIG", "down_seq": "SGEENKVTDASSLPHVAELS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754" }, { "database": "iPTMnet", "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser152" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "281", "end_pos": "281" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "152", "end_pos": "152" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "upstream", "id": "P36139-1.164.164", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P36139-1.164.164", "start_pos": 164, "end_pos": 164, "uniprot_canonical_ac": "P36139-1", "length": 283, "uniprot_id": "PET10_YEAST", "protein_name": "Protein PET10", "refseq_ac": "NP_012972", "refseq_name": "Pln1p", "gene_name": "PET10", "gene_names_uniprotkb": "PET10", "gene_names_refseq": "PET10; PLN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36139", "url": "https://www.uniprot.org/uniprotkb/P36139" } ], "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": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" } ], "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": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139", "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": "STASKEIGSSGEENKVTDAS", "down_seq": "LPHVAELSSTTRGMSQEIQS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754" }, { "database": "iPTMnet", "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser164" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "281", "end_pos": "281" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "152", "end_pos": "152" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P36139-1.152.152", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P36139-1.179.179", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P36139-1.184.184", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P36139-1.179.179", "start_pos": 179, "end_pos": 179, "uniprot_canonical_ac": "P36139-1", "length": 283, "uniprot_id": "PET10_YEAST", "protein_name": "Protein PET10", "refseq_ac": "NP_012972", "refseq_name": "Pln1p", "gene_name": "PET10", "gene_names_uniprotkb": "PET10", "gene_names_refseq": "PET10; PLN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36139", "url": "https://www.uniprot.org/uniprotkb/P36139" } ], "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": "iPTMnet", "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" } ], "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": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" } ], "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": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" } ], "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": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" } ], "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": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139", "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": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754", "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": "VTDASSLPHVAELSSTTRGM", "down_seq": "QEIQSKVKSNYIDPTKDLAK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" }, { "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": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754" }, { "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": "Ser179" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "281", "end_pos": "281" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "152", "end_pos": "152" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P36139-1.164.164", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P36139-1.184.184", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P36139-1.188.188", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P36139-1.184.184", "start_pos": 184, "end_pos": 184, "uniprot_canonical_ac": "P36139-1", "length": 283, "uniprot_id": "PET10_YEAST", "protein_name": "Protein PET10", "refseq_ac": "NP_012972", "refseq_name": "Pln1p", "gene_name": "PET10", "gene_names_uniprotkb": "PET10", "gene_names_refseq": "PET10; PLN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36139", "url": "https://www.uniprot.org/uniprotkb/P36139" } ], "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": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139", "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": "SLPHVAELSSTTRGMSQEIQ", "down_seq": "KVKSNYIDPTKDLAKEKYDA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754" }, { "database": "iPTMnet", "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser184" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "281", "end_pos": "281" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "152", "end_pos": "152" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P36139-1.164.164", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P36139-1.179.179", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P36139-1.188.188", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P36139-1.188.188", "start_pos": 188, "end_pos": 188, "uniprot_canonical_ac": "P36139-1", "length": 283, "uniprot_id": "PET10_YEAST", "protein_name": "Protein PET10", "refseq_ac": "NP_012972", "refseq_name": "Pln1p", "gene_name": "PET10", "gene_names_uniprotkb": "PET10", "gene_names_refseq": "PET10; PLN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36139", "url": "https://www.uniprot.org/uniprotkb/P36139" } ], "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": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139", "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": "VAELSSTTRGMSQEIQSKVK", "down_seq": "NYIDPTKDLAKEKYDAIVKP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754" }, { "database": "iPTMnet", "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser188" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "281", "end_pos": "281" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "152", "end_pos": "152" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P36139-1.179.179", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P36139-1.184.184", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P36139-1.215.215", "start_pos": 215, "end_pos": 215, "uniprot_canonical_ac": "P36139-1", "length": 283, "uniprot_id": "PET10_YEAST", "protein_name": "Protein PET10", "refseq_ac": "NP_012972", "refseq_name": "Pln1p", "gene_name": "PET10", "gene_names_uniprotkb": "PET10", "gene_names_refseq": "PET10; PLN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36139", "url": "https://www.uniprot.org/uniprotkb/P36139" } ], "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": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139", "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": "KDLAKEKYDAIVKPTTDKLQ", "down_seq": "VYIDPTKTKLNETYQRFTTV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754" }, { "database": "iPTMnet", "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser215" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "281", "end_pos": "281" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "152", "end_pos": "152" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "2", "end_pos": "2" }, { "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": "P36139-1.243.243", "start_pos": 243, "end_pos": 243, "uniprot_canonical_ac": "P36139-1", "length": 283, "uniprot_id": "PET10_YEAST", "protein_name": "Protein PET10", "refseq_ac": "NP_012972", "refseq_name": "Pln1p", "gene_name": "PET10", "gene_names_uniprotkb": "PET10", "gene_names_refseq": "PET10; PLN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36139", "url": "https://www.uniprot.org/uniprotkb/P36139" } ], "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": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139", "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": "TKLNETYQRFTTVYENNLSK", "down_seq": "ESVPKAIVSTGLDLGNATIE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754" }, { "database": "iPTMnet", "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser243" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "281", "end_pos": "281" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "152", "end_pos": "152" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P36139-1.241.241", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P36139-1.252.252", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P36139-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P36139-1.261.261", "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": "P36139-1.253.253", "start_pos": 253, "end_pos": 253, "uniprot_canonical_ac": "P36139-1", "length": 283, "uniprot_id": "PET10_YEAST", "protein_name": "Protein PET10", "refseq_ac": "NP_012972", "refseq_name": "Pln1p", "gene_name": "PET10", "gene_names_uniprotkb": "PET10", "gene_names_refseq": "PET10; PLN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36139", "url": "https://www.uniprot.org/uniprotkb/P36139" } ], "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": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139", "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": "TTVYENNLSKSESVPKAIVS", "down_seq": "GLDLGNATIEKLKASREDQT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754" }, { "database": "iPTMnet", "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr253" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "281", "end_pos": "281" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "152", "end_pos": "152" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P36139-1.241.241", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P36139-1.243.243", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P36139-1.252.252", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P36139-1.261.261", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P36139-1.268.268", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P36139-1.261.261", "start_pos": 261, "end_pos": 261, "uniprot_canonical_ac": "P36139-1", "length": 283, "uniprot_id": "PET10_YEAST", "protein_name": "Protein PET10", "refseq_ac": "NP_012972", "refseq_name": "Pln1p", "gene_name": "PET10", "gene_names_uniprotkb": "PET10", "gene_names_refseq": "PET10; PLN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36139", "url": "https://www.uniprot.org/uniprotkb/P36139" } ], "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": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139", "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": "SKSESVPKAIVSTGLDLGNA", "down_seq": "IEKLKASREDQTNSKPAAVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754" }, { "database": "iPTMnet", "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr261" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "281", "end_pos": "281" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "152", "end_pos": "152" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P36139-1.241.241", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P36139-1.243.243", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P36139-1.252.252", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P36139-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P36139-1.268.268", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P36139-1.275.275", "categories": [ "glycosylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P36139-1.281.281", "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": "P36139-1.268.268", "start_pos": 268, "end_pos": 268, "uniprot_canonical_ac": "P36139-1", "length": 283, "uniprot_id": "PET10_YEAST", "protein_name": "Protein PET10", "refseq_ac": "NP_012972", "refseq_name": "Pln1p", "gene_name": "PET10", "gene_names_uniprotkb": "PET10", "gene_names_refseq": "PET10; PLN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36139", "url": "https://www.uniprot.org/uniprotkb/P36139" } ], "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": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139", "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": "KAIVSTGLDLGNATIEKLKA", "down_seq": "REDQTNSKPAAVSTN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754" }, { "database": "iPTMnet", "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser268" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "281", "end_pos": "281" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "152", "end_pos": "152" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P36139-1.252.252", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P36139-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P36139-1.261.261", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P36139-1.275.275", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P36139-1.281.281", "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": "P36139-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P36139-1", "length": 283, "uniprot_id": "PET10_YEAST", "protein_name": "Protein PET10", "refseq_ac": "NP_012972", "refseq_name": "Pln1p", "gene_name": "PET10", "gene_names_uniprotkb": "PET10", "gene_names_refseq": "PET10; PLN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36139", "url": "https://www.uniprot.org/uniprotkb/P36139" } ], "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": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139", "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": "ESSISSSKPSVELPQATWSH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754" }, { "database": "iPTMnet", "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "281", "end_pos": "281" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "152", "end_pos": "152" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P36139-1.0.0", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P36139-1.5.5", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P36139-1.5.5", "start_pos": 5, "end_pos": 5, "uniprot_canonical_ac": "P36139-1", "length": 283, "uniprot_id": "PET10_YEAST", "protein_name": "Protein PET10", "refseq_ac": "NP_012972", "refseq_name": "Pln1p", "gene_name": "PET10", "gene_names_uniprotkb": "PET10", "gene_names_refseq": "PET10; PLN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36139", "url": "https://www.uniprot.org/uniprotkb/P36139" } ], "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": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139", "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": "MSES", "down_seq": "ISSSKPSVELPQATWSHLQR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001754", "url": "https://www.yeastgenome.org/locus/S000001754" }, { "database": "iPTMnet", "id": "P36139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36139" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser5" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "281", "end_pos": "281" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "152", "end_pos": "152" }, { "start_pos": "164", "end_pos": "164" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "215", "end_pos": "215" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P36139-1.0.0", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P36139-1.2.2", "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": "P36150-1.279.279", "start_pos": 279, "end_pos": 279, "uniprot_canonical_ac": "P36150-1", "length": 593, "uniprot_id": "SUMT_YEAST", "protein_name": "Uroporphyrinogen-III C-methyltransferase", "refseq_ac": "NP_012995", "refseq_name": "uroporphyrinogen-III C-methyltransferase", "gene_name": "MET1", "gene_names_uniprotkb": "MET1; MET20", "gene_names_refseq": "MET1; MET20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36150", "url": "https://www.uniprot.org/uniprotkb/P36150" } ], "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", "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": "P36150", "url": "https://www.uniprot.org/uniprotkb/P36150" }, { "database": "iPTMnet", "id": "P36150", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36150" } ], "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": "P36150", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36150" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P36150", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36150", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001777", "url": "https://www.yeastgenome.org/locus/S000001777", "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": "QIMEYYPMNKLSDIKLEDFE", "down_seq": "SSSPNKKTKQETVTEGVVPP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P36150", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36150" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001777", "url": "https://www.yeastgenome.org/locus/S000001777" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr279" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "279", "end_pos": "279" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "60", "end_pos": "60" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P36150-1.280.280", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P36150-1.281.281", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P36150-1.282.282", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P36150-1.280.280", "start_pos": 280, "end_pos": 280, "uniprot_canonical_ac": "P36150-1", "length": 593, "uniprot_id": "SUMT_YEAST", "protein_name": "Uroporphyrinogen-III C-methyltransferase", "refseq_ac": "NP_012995", "refseq_name": "uroporphyrinogen-III C-methyltransferase", "gene_name": "MET1", "gene_names_uniprotkb": "MET1; MET20", "gene_names_refseq": "MET1; MET20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36150", "url": "https://www.uniprot.org/uniprotkb/P36150" } ], "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": "P36150", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36150" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P36150", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36150" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P36150", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36150", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001777", "url": "https://www.yeastgenome.org/locus/S000001777", "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": "IMEYYPMNKLSDIKLEDFET", "down_seq": "SSPNKKTKQETVTEGVVPPT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P36150", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36150" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000001777", "url": "https://www.yeastgenome.org/locus/S000001777" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser280" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "279", "end_pos": "279" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "60", "end_pos": "60" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P36150-1.279.279", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P36150-1.281.281", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P36150-1.282.282", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P36150-1.281.281", "start_pos": 281, "end_pos": 281, "uniprot_canonical_ac": "P36150-1", "length": 593, "uniprot_id": "SUMT_YEAST", "protein_name": "Uroporphyrinogen-III C-methyltransferase", "refseq_ac": "NP_012995", "refseq_name": "uroporphyrinogen-III C-methyltransferase", "gene_name": "MET1", "gene_names_uniprotkb": "MET1; MET20", "gene_names_refseq": "MET1; MET20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36150", "url": "https://www.uniprot.org/uniprotkb/P36150" } ], "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": "P36150", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36150" } ], "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": "P36150", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36150" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001777", "url": "https://www.yeastgenome.org/locus/S000001777", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36150", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36150", "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": "MEYYPMNKLSDIKLEDFETS", "down_seq": "SPNKKTKQETVTEGVVPPTD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001777", "url": "https://www.yeastgenome.org/locus/S000001777" }, { "database": "iPTMnet", "id": "P36150", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36150" }, { "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": "279", "end_pos": "279" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "60", "end_pos": "60" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P36150-1.279.279", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P36150-1.280.280", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P36150-1.282.282", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P36150-1.282.282", "start_pos": 282, "end_pos": 282, "uniprot_canonical_ac": "P36150-1", "length": 593, "uniprot_id": "SUMT_YEAST", "protein_name": "Uroporphyrinogen-III C-methyltransferase", "refseq_ac": "NP_012995", "refseq_name": "uroporphyrinogen-III C-methyltransferase", "gene_name": "MET1", "gene_names_uniprotkb": "MET1; MET20", "gene_names_refseq": "MET1; MET20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36150", "url": "https://www.uniprot.org/uniprotkb/P36150" } ], "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": "P36150", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36150" } ], "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": "P36150", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36150" } ], "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": "P36150", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36150" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001777", "url": "https://www.yeastgenome.org/locus/S000001777", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36150", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36150", "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": "EYYPMNKLSDIKLEDFETSS", "down_seq": "PNKKTKQETVTEGVVPPTDE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001777", "url": "https://www.yeastgenome.org/locus/S000001777" }, { "database": "iPTMnet", "id": "P36150", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36150" }, { "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": "Ser282" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "279", "end_pos": "279" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "60", "end_pos": "60" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P36150-1.279.279", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P36150-1.280.280", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P36150-1.281.281", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P36150-1.60.60", "start_pos": 60, "end_pos": 60, "uniprot_canonical_ac": "P36150-1", "length": 593, "uniprot_id": "SUMT_YEAST", "protein_name": "Uroporphyrinogen-III C-methyltransferase", "refseq_ac": "NP_012995", "refseq_name": "uroporphyrinogen-III C-methyltransferase", "gene_name": "MET1", "gene_names_uniprotkb": "MET1; MET20", "gene_names_refseq": "MET1; MET20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36150", "url": "https://www.uniprot.org/uniprotkb/P36150" } ], "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": "P36150", "url": "https://www.uniprot.org/uniprotkb/P36150" }, { "database": "iPTMnet", "id": "P36150", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36150" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] } ], "crossref": [ { "id": "P36150", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36150", "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": "KNRIHSILNAGGNPIVVNPS", "down_seq": "PSHTKQLQLEFGKFAKFEIV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P36150", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36150" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ], "site_lbl": "Ser60" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "279", "end_pos": "279" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "60", "end_pos": "60" } ] } ], "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": "P36172-1.423.423", "start_pos": 423, "end_pos": 423, "uniprot_canonical_ac": "P36172-1", "length": 582, "uniprot_id": "VBA5_YEAST", "protein_name": "Vacuolar basic amino acid transporter 5", "refseq_ac": "NP_013031", "refseq_name": "basic amino acid transporter", "gene_name": "VBA5", "gene_names_uniprotkb": "VBA5", "gene_names_refseq": "VBA5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36172", "url": "https://www.uniprot.org/uniprotkb/P36172" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P36172", "url": "https://www.uniprot.org/uniprotkb/P36172", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "LLIFGGVLGVIGAGLMTLMT", "down_seq": "TSTKSTQIGVLLLPGFSLGF", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn423", "evidence": [ { "id": "P36172", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P36172#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "423", "end_pos": "423" }, { "start_pos": "70", "end_pos": "70" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P36172-1.70.70", "start_pos": 70, "end_pos": 70, "uniprot_canonical_ac": "P36172-1", "length": 582, "uniprot_id": "VBA5_YEAST", "protein_name": "Vacuolar basic amino acid transporter 5", "refseq_ac": "NP_013031", "refseq_name": "basic amino acid transporter", "gene_name": "VBA5", "gene_names_uniprotkb": "VBA5", "gene_names_refseq": "VBA5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36172", "url": "https://www.uniprot.org/uniprotkb/P36172" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P36172", "url": "https://www.uniprot.org/uniprotkb/P36172", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "TALDILIVGTIIDVVAEQFG", "down_seq": "YSKTGWLVTGYSLPNAILSL", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn70", "evidence": [ { "id": "P36172", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P36172#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "423", "end_pos": "423" }, { "start_pos": "70", "end_pos": "70" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P36973-1.181.181", "start_pos": 181, "end_pos": 181, "uniprot_canonical_ac": "P36973-1", "length": 181, "uniprot_id": "APT2_YEAST", "protein_name": "Adenine phosphoribosyltransferase 2", "refseq_ac": "NP_010729", "refseq_name": "adenine phosphoribosyltransferase APT2", "gene_name": "APT2", "gene_names_uniprotkb": "APT2; D9461.27", "gene_names_refseq": "APT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36973", "url": "https://www.uniprot.org/uniprotkb/P36973" } ], "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": "P36973", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36973" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002849", "url": "https://www.yeastgenome.org/locus/S000002849", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36973", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36973", "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": "VLDSLHGEEKLSAPIFSILH", "down_seq": "", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002849", "url": "https://www.yeastgenome.org/locus/S000002849" }, { "database": "iPTMnet", "id": "P36973", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36973" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser181" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "6", "end_pos": "6" } ] } ], "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": "P36973-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P36973-1", "length": 181, "uniprot_id": "APT2_YEAST", "protein_name": "Adenine phosphoribosyltransferase 2", "refseq_ac": "NP_010729", "refseq_name": "adenine phosphoribosyltransferase APT2", "gene_name": "APT2", "gene_names_uniprotkb": "APT2; D9461.27", "gene_names_refseq": "APT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36973", "url": "https://www.uniprot.org/uniprotkb/P36973" } ], "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": "P36973", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36973" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002849", "url": "https://www.yeastgenome.org/locus/S000002849", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36973", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36973", "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": "ISESYAKEIKTAFRQFTDFP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002849", "url": "https://www.yeastgenome.org/locus/S000002849" }, { "database": "iPTMnet", "id": "P36973", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36973" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P36973-1.6.6", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P36973-1.6.6", "start_pos": 6, "end_pos": 6, "uniprot_canonical_ac": "P36973-1", "length": 181, "uniprot_id": "APT2_YEAST", "protein_name": "Adenine phosphoribosyltransferase 2", "refseq_ac": "NP_010729", "refseq_name": "adenine phosphoribosyltransferase APT2", "gene_name": "APT2", "gene_names_uniprotkb": "APT2; D9461.27", "gene_names_refseq": "APT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P36973", "url": "https://www.uniprot.org/uniprotkb/P36973" } ], "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": "P36973", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36973" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002849", "url": "https://www.yeastgenome.org/locus/S000002849", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P36973", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36973", "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": "MSISE", "down_seq": "YAKEIKTAFRQFTDFPIEGE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002849", "url": "https://www.yeastgenome.org/locus/S000002849" }, { "database": "iPTMnet", "id": "P36973", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P36973" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser6" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P36973-1.2.2", "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": "P37261-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P37261-1", "length": 193, "uniprot_id": "FRM2_YEAST", "protein_name": "nitroreductase FRM2", "refseq_ac": "NP_009904", "refseq_name": "type II nitroreductase", "gene_name": "FRM2", "gene_names_uniprotkb": "FRM2; YCLX08C; YCLX8C", "gene_names_refseq": "FRM2; YCLX08C", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37261", "url": "https://www.uniprot.org/uniprotkb/P37261" } ], "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": "P37261", "url": "https://www.uniprot.org/uniprotkb/P37261" }, { "database": "iPTMnet", "id": "P37261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37261" } ], "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": "P37261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37261" } ], "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": "P37261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37261" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P37261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37261", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000589", "url": "https://www.yeastgenome.org/locus/S000000589", "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": "PTGNYLNAITNRRTIYNLKP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P37261", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37261" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000589", "url": "https://www.yeastgenome.org/locus/S000000589" }, { "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": "2", "end_pos": "2" } ] } ], "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": "P37304-1.530.530", "start_pos": 530, "end_pos": 530, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P37304" }, { "database": "O-GlcNAc Atlas", "id": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "QRKALQQQQQYQQRPPKQVY", "down_seq": "GPSGTPTSGNNNNKSYNPNR", "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": "Ser530", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P37304", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P37304" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser530" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P37304-1.533.533", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P37304-1.535.535", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P37304-1.538.538", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P37304-1.533.533", "start_pos": 533, "end_pos": 533, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P37304" }, { "database": "O-GlcNAc Atlas", "id": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "ALQQQQQYQQRPPKQVYSGP", "down_seq": "GTPTSGNNNNKSYNPNRKSS", "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": "Ser533", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P37304", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P37304" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser533" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P37304-1.530.530", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P37304-1.535.535", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P37304-1.538.538", "categories": [ "glycosylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P37304-1.553.553", "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": "P37304-1.538.538", "start_pos": 538, "end_pos": 538, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P37304" }, { "database": "O-GlcNAc Atlas", "id": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304" } ], "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": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QQYQQRPPKQVYSGPSGTPT", "down_seq": "GNNNNKSYNPNRKSSYSQPQ", "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": "Ser538", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P37304", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P37304" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P37304-1.530.530", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P37304-1.533.533", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P37304-1.535.535", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P37304-1.553.553", "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": "P37304-1.565.565", "start_pos": 565, "end_pos": 565, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P37304" }, { "database": "O-GlcNAc Atlas", "id": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304" } ], "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": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SYNPNRKSSYSQPQHVAMMT", "down_seq": "RGLHGPSAASSSPVISANNF", "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": "Ser565", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P37304", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P37304" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P37304-1.553.553", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P37304-1.572.572", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P37304-1.575.575", "categories": [ "glycosylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P37304-1.576.576", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P37304-1.577.577", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P37304-1.581.581", "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": "P37304-1.572.572", "start_pos": 572, "end_pos": 572, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P37304" }, { "database": "O-GlcNAc Atlas", "id": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "SSYSQPQHVAMMTSRGLHGP", "down_seq": "AASSSPVISANNFVDPVSSG", "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": "Ser572", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P37304", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P37304" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser572" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P37304-1.553.553", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P37304-1.565.565", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P37304-1.575.575", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P37304-1.576.576", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P37304-1.577.577", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P37304-1.581.581", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P37304-1.590.590", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P37304-1.591.591", "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": 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": "P37304-1.575.575", "start_pos": 575, "end_pos": 575, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P37304" }, { "database": "O-GlcNAc Atlas", "id": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304" } ], "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": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SQPQHVAMMTSRGLHGPSAA", "down_seq": "SSPVISANNFVDPVSSGTPY", "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": "Ser575", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P37304", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P37304" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P37304-1.565.565", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P37304-1.572.572", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P37304-1.576.576", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P37304-1.577.577", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P37304-1.581.581", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P37304-1.590.590", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P37304-1.591.591", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P37304-1.593.593", "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": "P37304-1.576.576", "start_pos": 576, "end_pos": 576, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P37304" }, { "database": "O-GlcNAc Atlas", "id": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "QPQHVAMMTSRGLHGPSAAS", "down_seq": "SPVISANNFVDPVSSGTPYS", "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": "Ser576", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P37304", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P37304" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser576" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P37304-1.565.565", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P37304-1.572.572", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P37304-1.575.575", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P37304-1.577.577", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P37304-1.581.581", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P37304-1.590.590", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P37304-1.591.591", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P37304-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P37304-1.596.596", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P37304-1.577.577", "start_pos": 577, "end_pos": 577, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P37304" }, { "database": "O-GlcNAc Atlas", "id": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "PQHVAMMTSRGLHGPSAASS", "down_seq": "PVISANNFVDPVSSGTPYSS", "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": "Ser577", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P37304", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P37304" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser577" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P37304-1.565.565", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P37304-1.572.572", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P37304-1.575.575", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P37304-1.576.576", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P37304-1.581.581", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P37304-1.590.590", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P37304-1.591.591", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P37304-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P37304-1.596.596", "categories": [ "glycosylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P37304-1.597.597", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P37304-1.581.581", "start_pos": 581, "end_pos": 581, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P37304" }, { "database": "O-GlcNAc Atlas", "id": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "AMMTSRGLHGPSAASSSPVI", "down_seq": "ANNFVDPVSSGTPYSSNSSR", "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": "Ser581", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P37304", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P37304" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser581" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P37304-1.565.565", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P37304-1.572.572", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P37304-1.575.575", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P37304-1.576.576", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P37304-1.577.577", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P37304-1.590.590", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P37304-1.591.591", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P37304-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P37304-1.596.596", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P37304-1.597.597", "categories": [ "glycosylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P37304-1.599.599", "categories": [ "glycosylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P37304-1.600.600", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P37304-1.590.590", "start_pos": 590, "end_pos": 590, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P37304" }, { "database": "O-GlcNAc Atlas", "id": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "GPSAASSSPVISANNFVDPV", "down_seq": "SGTPYSSNSSRFSQQIPSQQ", "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": "Ser590", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P37304", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P37304" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser590" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P37304-1.572.572", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P37304-1.575.575", "categories": [ "glycosylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P37304-1.576.576", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P37304-1.577.577", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P37304-1.581.581", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P37304-1.591.591", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P37304-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P37304-1.596.596", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P37304-1.597.597", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P37304-1.599.599", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P37304-1.600.600", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P37304-1.591.591", "start_pos": 591, "end_pos": 591, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P37304" }, { "database": "O-GlcNAc Atlas", "id": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "PSAASSSPVISANNFVDPVS", "down_seq": "GTPYSSNSSRFSQQIPSQQY", "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": "Ser591", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P37304", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P37304" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser591" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P37304-1.572.572", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P37304-1.575.575", "categories": [ "glycosylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P37304-1.576.576", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P37304-1.577.577", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P37304-1.581.581", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P37304-1.590.590", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P37304-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P37304-1.596.596", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P37304-1.597.597", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P37304-1.599.599", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P37304-1.600.600", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P37304-1.596.596", "start_pos": 596, "end_pos": 596, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P37304" }, { "database": "O-GlcNAc Atlas", "id": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304" } ], "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": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSPVISANNFVDPVSSGTPY", "down_seq": "SNSSRFSQQIPSQQYMHTVK", "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": "Ser596", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P37304", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P37304" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P37304-1.576.576", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P37304-1.577.577", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P37304-1.581.581", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P37304-1.590.590", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P37304-1.591.591", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P37304-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P37304-1.597.597", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P37304-1.599.599", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P37304-1.600.600", "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": "P37304-1.597.597", "start_pos": 597, "end_pos": 597, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P37304" }, { "database": "O-GlcNAc Atlas", "id": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304" } ], "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": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SPVISANNFVDPVSSGTPYS", "down_seq": "NSSRFSQQIPSQQYMHTVKP", "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": "Ser597", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P37304", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P37304" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P37304-1.577.577", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P37304-1.581.581", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P37304-1.590.590", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P37304-1.591.591", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P37304-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P37304-1.596.596", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P37304-1.599.599", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P37304-1.600.600", "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": "P37304-1.599.599", "start_pos": 599, "end_pos": 599, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P37304" }, { "database": "O-GlcNAc Atlas", "id": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304" } ], "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": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VISANNFVDPVSSGTPYSSN", "down_seq": "SRFSQQIPSQQYMHTVKPTS", "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": "Ser599", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P37304", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P37304" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P37304-1.581.581", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P37304-1.590.590", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P37304-1.591.591", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P37304-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P37304-1.596.596", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P37304-1.597.597", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P37304-1.600.600", "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": "P37304-1.600.600", "start_pos": 600, "end_pos": 600, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P37304" }, { "database": "O-GlcNAc Atlas", "id": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304" } ], "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": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ISANNFVDPVSSGTPYSSNS", "down_seq": "RFSQQIPSQQYMHTVKPTSR", "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": "Ser600", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P37304", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P37304" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P37304-1.581.581", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P37304-1.590.590", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P37304-1.591.591", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P37304-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P37304-1.596.596", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P37304-1.597.597", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P37304-1.599.599", "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": "P37304-1.668.668", "start_pos": 668, "end_pos": 668, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P37304" }, { "database": "O-GlcNAc Atlas", "id": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "NGMNGTQSRLNSLSNQSTFR", "down_seq": "QQGPPITQQKSFQNNGGSMR", "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": "Ser668", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P37304", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P37304" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser668" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P37304-1.653.653", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P37304-1.655.655", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P37304-1.659.659", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P37304-1.661.661", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P37304-1.664.664", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P37304-1.665.665", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P37304-1.679.679", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P37304-1.686.686", "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": "P37304-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P37304" }, { "database": "O-GlcNAc Atlas", "id": "P37304", "url": "https://oglcnac.org/atlas/detail/P37304" } ], "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": "P37304", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P37304", "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": "P37304", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P37304" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "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": "P37304-1.250.250", "start_pos": 250, "end_pos": 250, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "ILEEKNPSTLDDHVLAKPLI", "down_seq": "GLLGESLLIIKKMGIAMNNP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ], "site_lbl": "Ser250" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P37304-1.256.256", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P37304-1.256.256", "start_pos": 256, "end_pos": 256, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "PSTLDDHVLAKPLISGLLGE", "down_seq": "LLIIKKMGIAMNNPNFQNEQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ], "site_lbl": "Ser256" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P37304-1.250.250", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P37304-1.368.368", "start_pos": 368, "end_pos": 368, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "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": "EWFIRKDENTALTRVDDLQN", "down_seq": "IALKDGKIMQLQNSESTLKN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "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": "Ser368" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "upstream", "id": "P37304-1.384.384", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P37304-1.385.385", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P37304-1.384.384", "start_pos": 384, "end_pos": 384, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "DLQNSIALKDGKIMQLQNSE", "down_seq": "TLKNEIKELQSQVLSLKQEV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser384" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P37304-1.368.368", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P37304-1.385.385", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P37304-1.399.399", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P37304-1.385.385", "start_pos": 385, "end_pos": 385, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "LQNSIALKDGKIMQLQNSES", "down_seq": "LKNEIKELQSQVLSLKQEVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr385" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P37304-1.368.368", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P37304-1.384.384", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P37304-1.399.399", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P37304-1.399.399", "start_pos": 399, "end_pos": 399, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "LQNSESTLKNEIKELQSQVL", "down_seq": "LKQEVSSSKANNGQELEILK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser399" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P37304-1.384.384", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P37304-1.385.385", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P37304-1.462.462", "start_pos": 462, "end_pos": 462, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "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": "PSDNIVDVDLNYERSDQGNN", "down_seq": "SGNDSRRQSFFNSTSDTTLS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser462" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P37304-1.463.463", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P37304-1.467.467", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P37304-1.471.471", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P37304-1.475.475", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P37304-1.476.476", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P37304-1.477.477", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P37304-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P37304-1.480.480", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P37304-1.482.482", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P37304-1.463.463", "start_pos": 463, "end_pos": 463, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "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": "SDNIVDVDLNYERSDQGNNS", "down_seq": "GNDSRRQSFFNSTSDTTLSR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser463" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P37304-1.462.462", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P37304-1.467.467", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P37304-1.471.471", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P37304-1.475.475", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P37304-1.476.476", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P37304-1.477.477", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P37304-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P37304-1.480.480", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P37304-1.482.482", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P37304-1.467.467", "start_pos": 467, "end_pos": 467, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "VDVDLNYERSDQGNNSSGND", "down_seq": "RRQSFFNSTSDTTLSRDETS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser467" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P37304-1.462.462", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P37304-1.463.463", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P37304-1.471.471", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P37304-1.475.475", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P37304-1.476.476", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P37304-1.477.477", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P37304-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P37304-1.480.480", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P37304-1.482.482", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P37304-1.487.487", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P37304-1.471.471", "start_pos": 471, "end_pos": 471, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "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": "LNYERSDQGNNSSGNDSRRQ", "down_seq": "FFNSTSDTTLSRDETSLKER", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "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": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "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": "Ser471" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P37304-1.462.462", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P37304-1.463.463", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P37304-1.467.467", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P37304-1.475.475", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P37304-1.476.476", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P37304-1.477.477", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P37304-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P37304-1.480.480", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P37304-1.482.482", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P37304-1.487.487", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P37304-1.475.475", "start_pos": 475, "end_pos": 475, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "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": "RSDQGNNSSGNDSRRQSFFN", "down_seq": "TSDTTLSRDETSLKERELEV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser475" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P37304-1.462.462", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P37304-1.463.463", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P37304-1.467.467", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P37304-1.471.471", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P37304-1.476.476", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P37304-1.477.477", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P37304-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P37304-1.480.480", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P37304-1.482.482", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P37304-1.487.487", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P37304-1.476.476", "start_pos": 476, "end_pos": 476, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "SDQGNNSSGNDSRRQSFFNS", "down_seq": "SDTTLSRDETSLKERELEVR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr476" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P37304-1.462.462", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P37304-1.463.463", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P37304-1.467.467", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P37304-1.471.471", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P37304-1.475.475", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P37304-1.477.477", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P37304-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P37304-1.480.480", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P37304-1.482.482", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P37304-1.487.487", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P37304-1.477.477", "start_pos": 477, "end_pos": 477, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "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": "DQGNNSSGNDSRRQSFFNST", "down_seq": "DTTLSRDETSLKERELEVRM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "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": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "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": "Ser477" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P37304-1.462.462", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P37304-1.463.463", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P37304-1.467.467", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P37304-1.471.471", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P37304-1.475.475", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P37304-1.476.476", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P37304-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P37304-1.480.480", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P37304-1.482.482", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P37304-1.487.487", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P37304-1.479.479", "start_pos": 479, "end_pos": 479, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "GNNSSGNDSRRQSFFNSTSD", "down_seq": "TLSRDETSLKERELEVRMKE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr479" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P37304-1.462.462", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P37304-1.463.463", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P37304-1.467.467", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P37304-1.471.471", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P37304-1.475.475", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P37304-1.476.476", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P37304-1.477.477", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P37304-1.480.480", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P37304-1.482.482", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P37304-1.487.487", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P37304-1.480.480", "start_pos": 480, "end_pos": 480, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "NNSSGNDSRRQSFFNSTSDT", "down_seq": "LSRDETSLKERELEVRMKEL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr480" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P37304-1.462.462", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P37304-1.463.463", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P37304-1.467.467", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P37304-1.471.471", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P37304-1.475.475", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P37304-1.476.476", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P37304-1.477.477", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P37304-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P37304-1.482.482", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P37304-1.487.487", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P37304-1.482.482", "start_pos": 482, "end_pos": 482, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "SSGNDSRRQSFFNSTSDTTL", "down_seq": "RDETSLKERELEVRMKELEL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser482" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P37304-1.462.462", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P37304-1.463.463", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P37304-1.467.467", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P37304-1.471.471", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P37304-1.475.475", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P37304-1.476.476", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P37304-1.477.477", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P37304-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P37304-1.480.480", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P37304-1.487.487", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P37304-1.487.487", "start_pos": 487, "end_pos": 487, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "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": "SRRQSFFNSTSDTTLSRDET", "down_seq": "LKERELEVRMKELELQEREL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "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": "Ser487" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P37304-1.467.467", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P37304-1.471.471", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P37304-1.475.475", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P37304-1.476.476", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P37304-1.477.477", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P37304-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P37304-1.480.480", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P37304-1.482.482", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P37304-1.535.535", "start_pos": 535, "end_pos": 535, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "QQQQQYQQRPPKQVYSGPSG", "down_seq": "PTSGNNNNKSYNPNRKSSYS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr535" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P37304-1.530.530", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P37304-1.533.533", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P37304-1.538.538", "categories": [ "glycosylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P37304-1.553.553", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P37304-1.553.553", "start_pos": 553, "end_pos": 553, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "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": "SGTPTSGNNNNKSYNPNRKS", "down_seq": "YSQPQHVAMMTSRGLHGPSA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "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": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser553" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P37304-1.533.533", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P37304-1.535.535", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P37304-1.538.538", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P37304-1.565.565", "categories": [ "glycosylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P37304-1.572.572", "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": "P37304-1.593.593", "start_pos": 593, "end_pos": 593, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "AASSSPVISANNFVDPVSSG", "down_seq": "PYSSNSSRFSQQIPSQQYMH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr593" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P37304-1.575.575", "categories": [ "glycosylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P37304-1.576.576", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P37304-1.577.577", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P37304-1.581.581", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P37304-1.590.590", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P37304-1.591.591", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P37304-1.596.596", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P37304-1.597.597", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P37304-1.599.599", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P37304-1.600.600", "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": "P37304-1.624.624", "start_pos": 624, "end_pos": 624, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QQIPSQQYMHTVKPTSRKNR", "down_seq": "SVMPNIGYVPGLTNNEYGRK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" } ], "site_lbl": "Ser624" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P37304-1.625.625", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P37304-1.625.625", "start_pos": 625, "end_pos": 625, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QIPSQQYMHTVKPTSRKNRS", "down_seq": "VMPNIGYVPGLTNNEYGRKF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" } ], "site_lbl": "Ser625" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P37304-1.624.624", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P37304-1.653.653", "start_pos": 653, "end_pos": 653, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "VPGLTNNEYGRKFNGNGMNG", "down_seq": "QSRLNSLSNQSTFRSQQGPP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr653" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P37304-1.655.655", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P37304-1.659.659", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P37304-1.661.661", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P37304-1.664.664", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P37304-1.665.665", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P37304-1.668.668", "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": "P37304-1.655.655", "start_pos": 655, "end_pos": 655, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "GLTNNEYGRKFNGNGMNGTQ", "down_seq": "RLNSLSNQSTFRSQQGPPIT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser655" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P37304-1.653.653", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P37304-1.659.659", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P37304-1.661.661", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P37304-1.664.664", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P37304-1.665.665", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P37304-1.668.668", "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": "P37304-1.659.659", "start_pos": 659, "end_pos": 659, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304", "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "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": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "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": "NEYGRKFNGNGMNGTQSRLN", "down_seq": "LSNQSTFRSQQGPPITQQKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" }, { "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "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": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "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": "Ser659" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P37304-1.653.653", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P37304-1.655.655", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P37304-1.661.661", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P37304-1.664.664", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P37304-1.665.665", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P37304-1.668.668", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P37304-1.679.679", "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": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P37304-1.661.661", "start_pos": 661, "end_pos": 661, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "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" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YGRKFNGNGMNGTQSRLNSL", "down_seq": "NQSTFRSQQGPPITQQKSFQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser661" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P37304-1.653.653", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P37304-1.655.655", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P37304-1.659.659", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P37304-1.664.664", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P37304-1.665.665", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P37304-1.668.668", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P37304-1.679.679", "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": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P37304-1.664.664", "start_pos": 664, "end_pos": 664, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "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": "KFNGNGMNGTQSRLNSLSNQ", "down_seq": "TFRSQQGPPITQQKSFQNNG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser664" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P37304-1.653.653", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P37304-1.655.655", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P37304-1.659.659", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P37304-1.661.661", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P37304-1.665.665", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P37304-1.668.668", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P37304-1.679.679", "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": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P37304-1.665.665", "start_pos": 665, "end_pos": 665, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "FNGNGMNGTQSRLNSLSNQS", "down_seq": "FRSQQGPPITQQKSFQNNGG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Thr665" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P37304-1.653.653", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P37304-1.655.655", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P37304-1.659.659", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P37304-1.661.661", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P37304-1.664.664", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P37304-1.668.668", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P37304-1.679.679", "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": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P37304-1.679.679", "start_pos": 679, "end_pos": 679, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "SLSNQSTFRSQQGPPITQQK", "down_seq": "FQNNGGSMRTNRIPSANYNI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser679" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P37304-1.659.659", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P37304-1.661.661", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P37304-1.664.664", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P37304-1.665.665", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P37304-1.668.668", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P37304-1.686.686", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P37304-1.686.686", "start_pos": 686, "end_pos": 686, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "FRSQQGPPITQQKSFQNNGG", "down_seq": "MRTNRIPSANYNISNQQSGF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser686" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P37304-1.668.668", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P37304-1.679.679", "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": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P37304-1.711.711", "start_pos": 711, "end_pos": 711, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "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": "RIPSANYNISNQQSGFVNSI", "down_seq": "SPNLSNLENRNTVQNSRNAD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser711" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P37304-1.712.712", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P37304-1.712.712", "start_pos": 712, "end_pos": 712, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "IPSANYNISNQQSGFVNSIS", "down_seq": "PNLSNLENRNTVQNSRNADS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Ser712" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P37304-1.711.711", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P37304-1.732.732", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P37304-1.732.732", "start_pos": 732, "end_pos": 732, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "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": "SPNLSNLENRNTVQNSRNAD", "down_seq": "APCVNQLNSDSPPQLQSLSQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser732" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P37304-1.712.712", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P37304-1.741.741", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P37304-1.743.743", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P37304-1.749.749", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P37304-1.741.741", "start_pos": 741, "end_pos": 741, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "RNTVQNSRNADSAPCVNQLN", "down_seq": "DSPPQLQSLSQNGTSKVPQI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser741" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P37304-1.732.732", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P37304-1.743.743", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P37304-1.749.749", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P37304-1.743.743", "start_pos": 743, "end_pos": 743, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "TVQNSRNADSAPCVNQLNSD", "down_seq": "PPQLQSLSQNGTSKVPQINI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser743" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P37304-1.732.732", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P37304-1.741.741", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P37304-1.749.749", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P37304-1.749.749", "start_pos": 749, "end_pos": 749, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "NADSAPCVNQLNSDSPPQLQ", "down_seq": "LSQNGTSKVPQINITQPSPI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser749" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P37304-1.732.732", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P37304-1.741.741", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P37304-1.743.743", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P37304-1.767.767", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P37304-1.767.767", "start_pos": 767, "end_pos": 767, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "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": "LQSLSQNGTSKVPQINITQP", "down_seq": "PIQTNFATSDNPAAVIKLGT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "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": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "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": "Ser767" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P37304-1.749.749", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P37304-1.771.771", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P37304-1.787.787", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P37304-1.771.771", "start_pos": 771, "end_pos": 771, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SQNGTSKVPQINITQPSPIQ", "down_seq": "NFATSDNPAAVIKLGTPSED", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" } ], "site_lbl": "Thr771" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P37304-1.767.767", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P37304-1.787.787", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P37304-1.787.787", "start_pos": 787, "end_pos": 787, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "SPIQTNFATSDNPAAVIKLG", "down_seq": "PSEDTVSAAATANNISTMGD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr787" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P37304-1.767.767", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P37304-1.771.771", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P37304-1.794.794", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P37304-1.794.794", "start_pos": 794, "end_pos": 794, "uniprot_canonical_ac": "P37304-1", "length": 830, "uniprot_id": "PAM1_YEAST", "protein_name": "Protein PAM1", "refseq_ac": "NP_010537", "refseq_name": "Pam1p", "gene_name": "PAM1", "gene_names_uniprotkb": "PAM1; YD8419.18; YD9320A.01", "gene_names_refseq": "PAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P37304", "url": "https://www.uniprot.org/uniprotkb/P37304" } ], "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": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304", "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": "ATSDNPAAVIKLGTPSEDTV", "down_seq": "AAATANNISTMGDESRKEDV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002659", "url": "https://www.yeastgenome.org/locus/S000002659" }, { "database": "iPTMnet", "id": "P37304", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P37304" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser794" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "600", "end_pos": "600" }, { "start_pos": "668", "end_pos": "668" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "250", "end_pos": "250" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "475", "end_pos": "475" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "625", "end_pos": "625" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "659", "end_pos": "659" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "664", "end_pos": "664" }, { "start_pos": "665", "end_pos": "665" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "711", "end_pos": "711" }, { "start_pos": "712", "end_pos": "712" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "741", "end_pos": "741" }, { "start_pos": "743", "end_pos": "743" }, { "start_pos": "749", "end_pos": "749" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "794", "end_pos": "794" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P37304-1.787.787", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38061-1.101.101", "start_pos": 101, "end_pos": 101, "uniprot_canonical_ac": "P38061-1", "length": 130, "uniprot_id": "RL32_YEAST", "protein_name": "Large ribosomal subunit protein eL32", "refseq_ac": "NP_009460", "refseq_name": "60S ribosomal protein eL32 RPL32", "gene_name": "RPL32", "gene_names_uniprotkb": "RPL32; YBL0838", "gene_names_refseq": "RPL32", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38061", "url": "https://www.uniprot.org/uniprotkb/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000188", "url": "https://www.yeastgenome.org/locus/S000000188", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061", "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": "DLETLTMHTKTYAAEIAHNI", "down_seq": "AKNRVVILARAKALGIKVTN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000188", "url": "https://www.yeastgenome.org/locus/S000000188" }, { "database": "iPTMnet", "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser101" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38061-1.84.84", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38061-1.86.86", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38061-1.89.89", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38061-1.91.91", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38061-1.92.92", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38061-1.3.3", "start_pos": 3, "end_pos": 3, "uniprot_canonical_ac": "P38061-1", "length": 130, "uniprot_id": "RL32_YEAST", "protein_name": "Large ribosomal subunit protein eL32", "refseq_ac": "NP_009460", "refseq_name": "60S ribosomal protein eL32 RPL32", "gene_name": "RPL32", "gene_names_uniprotkb": "RPL32; YBL0838", "gene_names_refseq": "RPL32", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38061", "url": "https://www.uniprot.org/uniprotkb/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061", "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": "S000000188", "url": "https://www.yeastgenome.org/locus/S000000188", "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" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MA", "down_seq": "LPHPKIVKKHTKKFKRHHSD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" }, { "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": "S000000188", "url": "https://www.yeastgenome.org/locus/S000000188" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser3" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" } ] } ], "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": "P38061-1.40.40", "start_pos": 40, "end_pos": 40, "uniprot_canonical_ac": "P38061-1", "length": 130, "uniprot_id": "RL32_YEAST", "protein_name": "Large ribosomal subunit protein eL32", "refseq_ac": "NP_009460", "refseq_name": "60S ribosomal protein eL32 RPL32", "gene_name": "RPL32", "gene_names_uniprotkb": "RPL32; YBL0838", "gene_names_refseq": "RPL32", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38061", "url": "https://www.uniprot.org/uniprotkb/P38061" } ], "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": "P38061", "url": "https://www.uniprot.org/uniprotkb/P38061" }, { "database": "iPTMnet", "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "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": "iPTMnet", "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38061", "url": "https://www.uniprot.org/uniprotkb/P38061", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000000188", "url": "https://www.yeastgenome.org/locus/S000000188", "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": "HHSDRYHRVAENWRKQKGID", "down_seq": "VVRRRFRGNISQPKIGYGSN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38061", "url": "https://www.uniprot.org/uniprotkb/P38061" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "iPTMnet", "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" }, { "database": "SGD", "id": "S000000188", "url": "https://www.yeastgenome.org/locus/S000000188" }, { "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": "Ser40" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "upstream", "id": "P38061-1.51.51", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38061-1.59.59", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38061-1.51.51", "start_pos": 51, "end_pos": 51, "uniprot_canonical_ac": "P38061-1", "length": 130, "uniprot_id": "RL32_YEAST", "protein_name": "Large ribosomal subunit protein eL32", "refseq_ac": "NP_009460", "refseq_name": "60S ribosomal protein eL32 RPL32", "gene_name": "RPL32", "gene_names_uniprotkb": "RPL32; YBL0838", "gene_names_refseq": "RPL32", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38061", "url": "https://www.uniprot.org/uniprotkb/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "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": "iPTMnet", "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000188", "url": "https://www.yeastgenome.org/locus/S000000188", "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": "NWRKQKGIDSVVRRRFRGNI", "down_seq": "QPKIGYGSNKKTKFLSPSGH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000000188", "url": "https://www.yeastgenome.org/locus/S000000188" }, { "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": "Ser51" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38061-1.40.40", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38061-1.59.59", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38061-1.67.67", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38061-1.69.69", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38061-1.59.59", "start_pos": 59, "end_pos": 59, "uniprot_canonical_ac": "P38061-1", "length": 130, "uniprot_id": "RL32_YEAST", "protein_name": "Large ribosomal subunit protein eL32", "refseq_ac": "NP_009460", "refseq_name": "60S ribosomal protein eL32 RPL32", "gene_name": "RPL32", "gene_names_uniprotkb": "RPL32; YBL0838", "gene_names_refseq": "RPL32", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38061", "url": "https://www.uniprot.org/uniprotkb/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000188", "url": "https://www.yeastgenome.org/locus/S000000188", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061", "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": "DSVVRRRFRGNISQPKIGYG", "down_seq": "NKKTKFLSPSGHKTFLVANV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000188", "url": "https://www.yeastgenome.org/locus/S000000188" }, { "database": "iPTMnet", "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" }, { "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": "Ser59" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38061-1.40.40", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38061-1.51.51", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38061-1.67.67", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38061-1.69.69", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38061-1.73.73", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38061-1.67.67", "start_pos": 67, "end_pos": 67, "uniprot_canonical_ac": "P38061-1", "length": 130, "uniprot_id": "RL32_YEAST", "protein_name": "Large ribosomal subunit protein eL32", "refseq_ac": "NP_009460", "refseq_name": "60S ribosomal protein eL32 RPL32", "gene_name": "RPL32", "gene_names_uniprotkb": "RPL32; YBL0838", "gene_names_refseq": "RPL32", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38061", "url": "https://www.uniprot.org/uniprotkb/P38061" } ], "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": "iPTMnet", "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061", "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": "S000000188", "url": "https://www.yeastgenome.org/locus/S000000188", "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": "RGNISQPKIGYGSNKKTKFL", "down_seq": "PSGHKTFLVANVKDLETLTM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" }, { "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": "S000000188", "url": "https://www.yeastgenome.org/locus/S000000188" }, { "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": "Ser67" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38061-1.51.51", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38061-1.59.59", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38061-1.69.69", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38061-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38061-1.84.84", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38061-1.86.86", "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": "P38061-1.69.69", "start_pos": 69, "end_pos": 69, "uniprot_canonical_ac": "P38061-1", "length": 130, "uniprot_id": "RL32_YEAST", "protein_name": "Large ribosomal subunit protein eL32", "refseq_ac": "NP_009460", "refseq_name": "60S ribosomal protein eL32 RPL32", "gene_name": "RPL32", "gene_names_uniprotkb": "RPL32; YBL0838", "gene_names_refseq": "RPL32", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38061", "url": "https://www.uniprot.org/uniprotkb/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000188", "url": "https://www.yeastgenome.org/locus/S000000188", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061", "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": "NISQPKIGYGSNKKTKFLSP", "down_seq": "GHKTFLVANVKDLETLTMHT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000188", "url": "https://www.yeastgenome.org/locus/S000000188" }, { "database": "iPTMnet", "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" }, { "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": "Ser69" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38061-1.51.51", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38061-1.59.59", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38061-1.67.67", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38061-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38061-1.84.84", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38061-1.86.86", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38061-1.89.89", "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": "P38061-1.73.73", "start_pos": 73, "end_pos": 73, "uniprot_canonical_ac": "P38061-1", "length": 130, "uniprot_id": "RL32_YEAST", "protein_name": "Large ribosomal subunit protein eL32", "refseq_ac": "NP_009460", "refseq_name": "60S ribosomal protein eL32 RPL32", "gene_name": "RPL32", "gene_names_uniprotkb": "RPL32; YBL0838", "gene_names_refseq": "RPL32", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38061", "url": "https://www.uniprot.org/uniprotkb/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000188", "url": "https://www.yeastgenome.org/locus/S000000188", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061", "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": "PKIGYGSNKKTKFLSPSGHK", "down_seq": "FLVANVKDLETLTMHTKTYA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000188", "url": "https://www.yeastgenome.org/locus/S000000188" }, { "database": "iPTMnet", "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr73" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38061-1.59.59", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38061-1.67.67", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38061-1.69.69", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38061-1.84.84", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38061-1.86.86", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38061-1.89.89", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38061-1.91.91", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38061-1.92.92", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38061-1.84.84", "start_pos": 84, "end_pos": 84, "uniprot_canonical_ac": "P38061-1", "length": 130, "uniprot_id": "RL32_YEAST", "protein_name": "Large ribosomal subunit protein eL32", "refseq_ac": "NP_009460", "refseq_name": "60S ribosomal protein eL32 RPL32", "gene_name": "RPL32", "gene_names_uniprotkb": "RPL32; YBL0838", "gene_names_refseq": "RPL32", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38061", "url": "https://www.uniprot.org/uniprotkb/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000188", "url": "https://www.yeastgenome.org/locus/S000000188", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061", "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": "KFLSPSGHKTFLVANVKDLE", "down_seq": "LTMHTKTYAAEIAHNISAKN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000188", "url": "https://www.yeastgenome.org/locus/S000000188" }, { "database": "iPTMnet", "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr84" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38061-1.67.67", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38061-1.69.69", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38061-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38061-1.86.86", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38061-1.89.89", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38061-1.91.91", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38061-1.92.92", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38061-1.101.101", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38061-1.86.86", "start_pos": 86, "end_pos": 86, "uniprot_canonical_ac": "P38061-1", "length": 130, "uniprot_id": "RL32_YEAST", "protein_name": "Large ribosomal subunit protein eL32", "refseq_ac": "NP_009460", "refseq_name": "60S ribosomal protein eL32 RPL32", "gene_name": "RPL32", "gene_names_uniprotkb": "RPL32; YBL0838", "gene_names_refseq": "RPL32", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38061", "url": "https://www.uniprot.org/uniprotkb/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000188", "url": "https://www.yeastgenome.org/locus/S000000188", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061", "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": "LSPSGHKTFLVANVKDLETL", "down_seq": "MHTKTYAAEIAHNISAKNRV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000188", "url": "https://www.yeastgenome.org/locus/S000000188" }, { "database": "iPTMnet", "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr86" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38061-1.67.67", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38061-1.69.69", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38061-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38061-1.84.84", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38061-1.89.89", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38061-1.91.91", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38061-1.92.92", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38061-1.101.101", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38061-1.89.89", "start_pos": 89, "end_pos": 89, "uniprot_canonical_ac": "P38061-1", "length": 130, "uniprot_id": "RL32_YEAST", "protein_name": "Large ribosomal subunit protein eL32", "refseq_ac": "NP_009460", "refseq_name": "60S ribosomal protein eL32 RPL32", "gene_name": "RPL32", "gene_names_uniprotkb": "RPL32; YBL0838", "gene_names_refseq": "RPL32", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38061", "url": "https://www.uniprot.org/uniprotkb/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000188", "url": "https://www.yeastgenome.org/locus/S000000188", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061", "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": "SGHKTFLVANVKDLETLTMH", "down_seq": "KTYAAEIAHNISAKNRVVIL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000188", "url": "https://www.yeastgenome.org/locus/S000000188" }, { "database": "iPTMnet", "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr89" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38061-1.69.69", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38061-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38061-1.84.84", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38061-1.86.86", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38061-1.91.91", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38061-1.92.92", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38061-1.101.101", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38061-1.91.91", "start_pos": 91, "end_pos": 91, "uniprot_canonical_ac": "P38061-1", "length": 130, "uniprot_id": "RL32_YEAST", "protein_name": "Large ribosomal subunit protein eL32", "refseq_ac": "NP_009460", "refseq_name": "60S ribosomal protein eL32 RPL32", "gene_name": "RPL32", "gene_names_uniprotkb": "RPL32; YBL0838", "gene_names_refseq": "RPL32", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38061", "url": "https://www.uniprot.org/uniprotkb/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000188", "url": "https://www.yeastgenome.org/locus/S000000188", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061", "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": "HKTFLVANVKDLETLTMHTK", "down_seq": "YAAEIAHNISAKNRVVILAR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000188", "url": "https://www.yeastgenome.org/locus/S000000188" }, { "database": "iPTMnet", "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr91" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38061-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38061-1.84.84", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38061-1.86.86", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38061-1.89.89", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38061-1.92.92", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38061-1.101.101", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38061-1.92.92", "start_pos": 92, "end_pos": 92, "uniprot_canonical_ac": "P38061-1", "length": 130, "uniprot_id": "RL32_YEAST", "protein_name": "Large ribosomal subunit protein eL32", "refseq_ac": "NP_009460", "refseq_name": "60S ribosomal protein eL32 RPL32", "gene_name": "RPL32", "gene_names_uniprotkb": "RPL32; YBL0838", "gene_names_refseq": "RPL32", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38061", "url": "https://www.uniprot.org/uniprotkb/P38061" } ], "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": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000188", "url": "https://www.yeastgenome.org/locus/S000000188", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061", "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": "KTFLVANVKDLETLTMHTKT", "down_seq": "AAEIAHNISAKNRVVILARA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000188", "url": "https://www.yeastgenome.org/locus/S000000188" }, { "database": "iPTMnet", "id": "P38061", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38061" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr92" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38061-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38061-1.84.84", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38061-1.86.86", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38061-1.89.89", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38061-1.91.91", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38061-1.101.101", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38073-1.102.102", "start_pos": 102, "end_pos": 102, "uniprot_canonical_ac": "P38073-1", "length": 919, "uniprot_id": "EDS1_YEAST", "protein_name": "Transcriptional regulatory protein EDS1", "refseq_ac": "NP_009589", "refseq_name": "Eds1p", "gene_name": "EDS1", "gene_names_uniprotkb": "EDS1; YBR0318", "gene_names_refseq": "EDS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38073", "url": "https://www.uniprot.org/uniprotkb/P38073" } ], "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", "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": "P38073", "url": "https://www.uniprot.org/uniprotkb/P38073" }, { "database": "iPTMnet", "id": "P38073", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38073" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38073", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38073", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000237", "url": "https://www.yeastgenome.org/locus/S000000237", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GEKCQFIRVPLKRGPAKKRG", "down_seq": "VVSIEKFSSDNDPLQYRPRT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38073", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38073" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000237", "url": "https://www.yeastgenome.org/locus/S000000237" } ], "site_lbl": "Ser102" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "231", "end_pos": "231" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38073-1.105.105", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38073-1.105.105", "start_pos": 105, "end_pos": 105, "uniprot_canonical_ac": "P38073-1", "length": 919, "uniprot_id": "EDS1_YEAST", "protein_name": "Transcriptional regulatory protein EDS1", "refseq_ac": "NP_009589", "refseq_name": "Eds1p", "gene_name": "EDS1", "gene_names_uniprotkb": "EDS1; YBR0318", "gene_names_refseq": "EDS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38073", "url": "https://www.uniprot.org/uniprotkb/P38073" } ], "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", "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": "P38073", "url": "https://www.uniprot.org/uniprotkb/P38073" }, { "database": "iPTMnet", "id": "P38073", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38073" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38073", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38073", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000237", "url": "https://www.yeastgenome.org/locus/S000000237", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "CQFIRVPLKRGPAKKRGSVV", "down_seq": "IEKFSSDNDPLQYRPRTHSY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38073", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38073" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000237", "url": "https://www.yeastgenome.org/locus/S000000237" } ], "site_lbl": "Ser105" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "231", "end_pos": "231" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38073-1.102.102", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38073-1.124.124", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38073-1.124.124", "start_pos": 124, "end_pos": 124, "uniprot_canonical_ac": "P38073-1", "length": 919, "uniprot_id": "EDS1_YEAST", "protein_name": "Transcriptional regulatory protein EDS1", "refseq_ac": "NP_009589", "refseq_name": "Eds1p", "gene_name": "EDS1", "gene_names_uniprotkb": "EDS1; YBR0318", "gene_names_refseq": "EDS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38073", "url": "https://www.uniprot.org/uniprotkb/P38073" } ], "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": "P38073", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38073" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000237", "url": "https://www.yeastgenome.org/locus/S000000237", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38073", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38073", "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": "VSIEKFSSDNDPLQYRPRTH", "down_seq": "YPMNSGNNYLPSLARNSSFP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000237", "url": "https://www.yeastgenome.org/locus/S000000237" }, { "database": "iPTMnet", "id": "P38073", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38073" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser124" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "231", "end_pos": "231" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38073-1.105.105", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38073-1.231.231", "start_pos": 231, "end_pos": 231, "uniprot_canonical_ac": "P38073-1", "length": 919, "uniprot_id": "EDS1_YEAST", "protein_name": "Transcriptional regulatory protein EDS1", "refseq_ac": "NP_009589", "refseq_name": "Eds1p", "gene_name": "EDS1", "gene_names_uniprotkb": "EDS1; YBR0318", "gene_names_refseq": "EDS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38073", "url": "https://www.uniprot.org/uniprotkb/P38073" } ], "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", "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": "P38073", "url": "https://www.uniprot.org/uniprotkb/P38073" }, { "database": "iPTMnet", "id": "P38073", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38073" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38073", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38073", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000237", "url": "https://www.yeastgenome.org/locus/S000000237", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GMITPVEEMGACSSNVRRQG", "down_seq": "QSLPIQEQRASPYINPFISG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38073", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38073" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000237", "url": "https://www.yeastgenome.org/locus/S000000237" } ], "site_lbl": "Ser231" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "231", "end_pos": "231" } ] } ], "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": "P38079-1.290.290", "start_pos": 290, "end_pos": 290, "uniprot_canonical_ac": "P38079-1", "length": 344, "uniprot_id": "YRO2_YEAST", "protein_name": "Protein YRO2", "refseq_ac": "NP_009610", "refseq_name": "Yro2p", "gene_name": "YRO2", "gene_names_uniprotkb": "YRO2; YBR0507", "gene_names_refseq": "YRO2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079" } ], "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": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079" }, { "database": "iPTMnet", "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079", "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": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000258", "url": "https://www.yeastgenome.org/locus/S000000258", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LIFDEEPAEHVGPVAEKKMP", "down_seq": "PASFKSSDSDSSIKEKLKLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" }, { "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": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000000258", "url": "https://www.yeastgenome.org/locus/S000000258" } ], "site_lbl": "Ser290" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "290", "end_pos": "290" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "343", "end_pos": "343" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38079-1.293.293", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38079-1.296.296", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38079-1.297.297", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38079-1.299.299", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38079-1.301.301", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38079-1.302.302", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38079-1.293.293", "start_pos": 293, "end_pos": 293, "uniprot_canonical_ac": "P38079-1", "length": 344, "uniprot_id": "YRO2_YEAST", "protein_name": "Protein YRO2", "refseq_ac": "NP_009610", "refseq_name": "Yro2p", "gene_name": "YRO2", "gene_names_uniprotkb": "YRO2; YBR0507", "gene_names_refseq": "YRO2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079" } ], "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": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079" }, { "database": "iPTMnet", "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079" }, { "database": "iPTMnet", "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000258", "url": "https://www.yeastgenome.org/locus/S000000258", "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": "DEEPAEHVGPVAEKKMPSPA", "down_seq": "FKSSDSDSSIKEKLKLKKKH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000258", "url": "https://www.yeastgenome.org/locus/S000000258" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser293" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "290", "end_pos": "290" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "343", "end_pos": "343" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38079-1.290.290", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38079-1.296.296", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38079-1.297.297", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38079-1.299.299", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38079-1.301.301", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38079-1.302.302", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38079-1.296.296", "start_pos": 296, "end_pos": 296, "uniprot_canonical_ac": "P38079-1", "length": 344, "uniprot_id": "YRO2_YEAST", "protein_name": "Protein YRO2", "refseq_ac": "NP_009610", "refseq_name": "Yro2p", "gene_name": "YRO2", "gene_names_uniprotkb": "YRO2; YBR0507", "gene_names_refseq": "YRO2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079" } ], "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": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079" }, { "database": "iPTMnet", "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079", "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": "S000000258", "url": "https://www.yeastgenome.org/locus/S000000258", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PAEHVGPVAEKKMPSPASFK", "down_seq": "SDSDSSIKEKLKLKKKHKKD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" }, { "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": "S000000258", "url": "https://www.yeastgenome.org/locus/S000000258" } ], "site_lbl": "Ser296" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "290", "end_pos": "290" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "343", "end_pos": "343" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38079-1.290.290", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38079-1.293.293", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38079-1.297.297", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38079-1.299.299", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38079-1.301.301", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38079-1.302.302", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38079-1.297.297", "start_pos": 297, "end_pos": 297, "uniprot_canonical_ac": "P38079-1", "length": 344, "uniprot_id": "YRO2_YEAST", "protein_name": "Protein YRO2", "refseq_ac": "NP_009610", "refseq_name": "Yro2p", "gene_name": "YRO2", "gene_names_uniprotkb": "YRO2; YBR0507", "gene_names_refseq": "YRO2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000258", "url": "https://www.yeastgenome.org/locus/S000000258", "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": "AEHVGPVAEKKMPSPASFKS", "down_seq": "DSDSSIKEKLKLKKKHKKDK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000258", "url": "https://www.yeastgenome.org/locus/S000000258" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser297" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "290", "end_pos": "290" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "343", "end_pos": "343" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38079-1.290.290", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38079-1.293.293", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38079-1.296.296", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38079-1.299.299", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38079-1.301.301", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38079-1.302.302", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38079-1.299.299", "start_pos": 299, "end_pos": 299, "uniprot_canonical_ac": "P38079-1", "length": 344, "uniprot_id": "YRO2_YEAST", "protein_name": "Protein YRO2", "refseq_ac": "NP_009610", "refseq_name": "Yro2p", "gene_name": "YRO2", "gene_names_uniprotkb": "YRO2; YBR0507", "gene_names_refseq": "YRO2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079" } ], "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": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079" }, { "database": "iPTMnet", "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079" }, { "database": "iPTMnet", "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079", "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": "S000000258", "url": "https://www.yeastgenome.org/locus/S000000258", "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": "HVGPVAEKKMPSPASFKSSD", "down_seq": "DSSIKEKLKLKKKHKKDKKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" }, { "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": "S000000258", "url": "https://www.yeastgenome.org/locus/S000000258" }, { "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": "Ser299" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "290", "end_pos": "290" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "343", "end_pos": "343" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38079-1.290.290", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38079-1.293.293", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38079-1.296.296", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38079-1.297.297", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38079-1.301.301", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38079-1.302.302", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38079-1.301.301", "start_pos": 301, "end_pos": 301, "uniprot_canonical_ac": "P38079-1", "length": 344, "uniprot_id": "YRO2_YEAST", "protein_name": "Protein YRO2", "refseq_ac": "NP_009610", "refseq_name": "Yro2p", "gene_name": "YRO2", "gene_names_uniprotkb": "YRO2; YBR0507", "gene_names_refseq": "YRO2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079" }, { "database": "iPTMnet", "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079" }, { "database": "iPTMnet", "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000258", "url": "https://www.yeastgenome.org/locus/S000000258", "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": "GPVAEKKMPSPASFKSSDSD", "down_seq": "SIKEKLKLKKKHKKDKKKAK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" }, { "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": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000258", "url": "https://www.yeastgenome.org/locus/S000000258" }, { "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": "Ser301" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "290", "end_pos": "290" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "343", "end_pos": "343" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38079-1.290.290", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38079-1.293.293", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38079-1.296.296", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38079-1.297.297", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38079-1.299.299", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38079-1.302.302", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38079-1.302.302", "start_pos": 302, "end_pos": 302, "uniprot_canonical_ac": "P38079-1", "length": 344, "uniprot_id": "YRO2_YEAST", "protein_name": "Protein YRO2", "refseq_ac": "NP_009610", "refseq_name": "Yro2p", "gene_name": "YRO2", "gene_names_uniprotkb": "YRO2; YBR0507", "gene_names_refseq": "YRO2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079" }, { "database": "iPTMnet", "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000258", "url": "https://www.yeastgenome.org/locus/S000000258", "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": "PVAEKKMPSPASFKSSDSDS", "down_seq": "IKEKLKLKKKHKKDKKKAKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" }, { "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": "S000000258", "url": "https://www.yeastgenome.org/locus/S000000258" }, { "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": "Ser302" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "290", "end_pos": "290" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "343", "end_pos": "343" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38079-1.290.290", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38079-1.293.293", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38079-1.296.296", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38079-1.297.297", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38079-1.299.299", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38079-1.301.301", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38079-1.341.341", "start_pos": 341, "end_pos": 341, "uniprot_canonical_ac": "P38079-1", "length": 344, "uniprot_id": "YRO2_YEAST", "protein_name": "Protein YRO2", "refseq_ac": "NP_009610", "refseq_name": "Yro2p", "gene_name": "YRO2", "gene_names_uniprotkb": "YRO2; YBR0507", "gene_names_refseq": "YRO2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079" } ], "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": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079" }, { "database": "iPTMnet", "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Profiling phosphoproteins of yeast mitochondria reveals a role of phosphorylation in assembly of the ATP synthase.", "journal": "Molecular & cellular proteomics : MCP", "date": "2007-11", "authors": "Reinders J\u00f6rg, Wagner Karina, Zahedi Rene P, Stojanovski Diana, Eyrich Beate, van der Laan Martin, Rehling Peter, Sickmann Albert, Pfanner Nikolaus, Meisinger Chris", "evidence": [ { "database": "UniProtKB", "id": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079" }, { "database": "iPTMnet", "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "reference": [ { "type": "PubMed", "id": "17761666", "url": "https://glygen.org/publication/PubMed/17761666" } ] }, { "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": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079" }, { "database": "iPTMnet", "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17761666", "url": "https://glygen.org/publication/PubMed/17761666", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "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": "S000000258", "url": "https://www.yeastgenome.org/locus/S000000258", "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": "KKAKKAKKAKKAQEEEEDVA", "down_seq": "DSE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "17761666", "url": "https://glygen.org/publication/PubMed/17761666" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "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": "S000000258", "url": "https://www.yeastgenome.org/locus/S000000258" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr341" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "290", "end_pos": "290" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "343", "end_pos": "343" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38079-1.343.343", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38079-1.343.343", "start_pos": 343, "end_pos": 343, "uniprot_canonical_ac": "P38079-1", "length": 344, "uniprot_id": "YRO2_YEAST", "protein_name": "Protein YRO2", "refseq_ac": "NP_009610", "refseq_name": "Yro2p", "gene_name": "YRO2", "gene_names_uniprotkb": "YRO2; YBR0507", "gene_names_refseq": "YRO2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Profiling phosphoproteins of yeast mitochondria reveals a role of phosphorylation in assembly of the ATP synthase.", "journal": "Molecular & cellular proteomics : MCP", "date": "2007-11", "authors": "Reinders J\u00f6rg, Wagner Karina, Zahedi Rene P, Stojanovski Diana, Eyrich Beate, van der Laan Martin, Rehling Peter, Sickmann Albert, Pfanner Nikolaus, Meisinger Chris", "evidence": [ { "database": "UniProtKB", "id": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079" }, { "database": "iPTMnet", "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "reference": [ { "type": "PubMed", "id": "17761666", "url": "https://glygen.org/publication/PubMed/17761666" } ] }, { "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": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079" }, { "database": "iPTMnet", "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079" }, { "database": "iPTMnet", "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "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": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17761666", "url": "https://glygen.org/publication/PubMed/17761666", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "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": "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": "S000000258", "url": "https://www.yeastgenome.org/locus/S000000258", "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": "AKKAKKAKKAQEEEEDVATD", "down_seq": "", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38079", "url": "https://www.uniprot.org/uniprotkb/P38079" }, { "database": "PubMed", "id": "17761666", "url": "https://glygen.org/publication/PubMed/17761666" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38079" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "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": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000000258", "url": "https://www.yeastgenome.org/locus/S000000258" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser343" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "290", "end_pos": "290" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "343", "end_pos": "343" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38079-1.341.341", "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": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38089-1.251.251", "start_pos": 251, "end_pos": 251, "uniprot_canonical_ac": "P38089-1", "length": 393, "uniprot_id": "PP2C4_YEAST", "protein_name": "Protein phosphatase 2C homolog 4", "refseq_ac": "NP_009683", "refseq_name": "type 2C protein phosphatase PTC4", "gene_name": "PTC4", "gene_names_uniprotkb": "PTC4; GCT1; YBR0921", "gene_names_refseq": "GCT1; PTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38089", "url": "https://www.uniprot.org/uniprotkb/P38089" } ], "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": "P38089", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38089" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P38089", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38089", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000329", "url": "https://www.yeastgenome.org/locus/S000000329", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NGGTVSLGRVGGVLALSRAF", "down_seq": "DFQFKRGVTYPHRRTKLTNI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38089", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38089" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000000329", "url": "https://www.yeastgenome.org/locus/S000000329" } ], "site_lbl": "Ser251" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "251", "end_pos": "251" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" } ] } ], "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": "P38089-1.279.279", "start_pos": 279, "end_pos": 279, "uniprot_canonical_ac": "P38089-1", "length": 393, "uniprot_id": "PP2C4_YEAST", "protein_name": "Protein phosphatase 2C homolog 4", "refseq_ac": "NP_009683", "refseq_name": "type 2C protein phosphatase PTC4", "gene_name": "PTC4", "gene_names_uniprotkb": "PTC4; GCT1; YBR0921", "gene_names_refseq": "GCT1; PTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38089", "url": "https://www.uniprot.org/uniprotkb/P38089" } ], "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": "P38089", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38089" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P38089", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38089", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000329", "url": "https://www.yeastgenome.org/locus/S000000329", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "VTYPHRRTKLTNITQNLTYG", "down_seq": "PPQEAQVTVEPDVLMHKIDY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38089", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38089" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000000329", "url": "https://www.yeastgenome.org/locus/S000000329" } ], "site_lbl": "Thr279" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "251", "end_pos": "251" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" } ] } ], "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": "P38089-1.71.71", "start_pos": 71, "end_pos": 71, "uniprot_canonical_ac": "P38089-1", "length": 393, "uniprot_id": "PP2C4_YEAST", "protein_name": "Protein phosphatase 2C homolog 4", "refseq_ac": "NP_009683", "refseq_name": "type 2C protein phosphatase PTC4", "gene_name": "PTC4", "gene_names_uniprotkb": "PTC4; GCT1; YBR0921", "gene_names_refseq": "GCT1; PTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38089", "url": "https://www.uniprot.org/uniprotkb/P38089" } ], "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": "iPTMnet", "id": "P38089", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38089" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38089", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38089", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000329", "url": "https://www.yeastgenome.org/locus/S000000329", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "LIRNENSVVYVRFFNPFIDK", "down_seq": "ETLSLNVFAVFDGHGGDDCS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38089", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38089" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000329", "url": "https://www.yeastgenome.org/locus/S000000329" } ], "site_lbl": "Tyr71" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "251", "end_pos": "251" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38089-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38089-1.75.75", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38089-1.73.73", "start_pos": 73, "end_pos": 73, "uniprot_canonical_ac": "P38089-1", "length": 393, "uniprot_id": "PP2C4_YEAST", "protein_name": "Protein phosphatase 2C homolog 4", "refseq_ac": "NP_009683", "refseq_name": "type 2C protein phosphatase PTC4", "gene_name": "PTC4", "gene_names_uniprotkb": "PTC4; GCT1; YBR0921", "gene_names_refseq": "GCT1; PTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38089", "url": "https://www.uniprot.org/uniprotkb/P38089" } ], "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": "iPTMnet", "id": "P38089", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38089" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38089", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38089", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000329", "url": "https://www.yeastgenome.org/locus/S000000329", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "RNENSVVYVRFFNPFIDKYE", "down_seq": "LSLNVFAVFDGHGGDDCSKF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38089", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38089" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000329", "url": "https://www.yeastgenome.org/locus/S000000329" } ], "site_lbl": "Thr73" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "251", "end_pos": "251" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38089-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38089-1.75.75", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38089-1.75.75", "start_pos": 75, "end_pos": 75, "uniprot_canonical_ac": "P38089-1", "length": 393, "uniprot_id": "PP2C4_YEAST", "protein_name": "Protein phosphatase 2C homolog 4", "refseq_ac": "NP_009683", "refseq_name": "type 2C protein phosphatase PTC4", "gene_name": "PTC4", "gene_names_uniprotkb": "PTC4; GCT1; YBR0921", "gene_names_refseq": "GCT1; PTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38089", "url": "https://www.uniprot.org/uniprotkb/P38089" } ], "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": "iPTMnet", "id": "P38089", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38089" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38089", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38089", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000329", "url": "https://www.yeastgenome.org/locus/S000000329", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ENSVVYVRFFNPFIDKYETL", "down_seq": "LNVFAVFDGHGGDDCSKFLS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38089", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38089" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000329", "url": "https://www.yeastgenome.org/locus/S000000329" } ], "site_lbl": "Ser75" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "251", "end_pos": "251" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38089-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38089-1.73.73", "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": "P38120-1.221.221", "start_pos": 221, "end_pos": 221, "uniprot_canonical_ac": "P38120-1", "length": 278, "uniprot_id": "RT09_YEAST", "protein_name": "Small ribosomal subunit protein uS9m", "refseq_ac": "NP_009704", "refseq_name": "mitochondrial 37S ribosomal protein uS9m MRPS9", "gene_name": "MRPS9", "gene_names_uniprotkb": "MRPS9; YBR1123", "gene_names_refseq": "MRPS9; uS9m", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38120", "url": "https://www.uniprot.org/uniprotkb/P38120" } ], "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": "QVIESVGKYNIFATTSGGGP", "down_seq": "GQAESIMHAIAKALVVFNPL", "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": "Thr221", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "221", "end_pos": "221" } ] } ], "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": 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": "P38124-1.64.64", "start_pos": 64, "end_pos": 64, "uniprot_canonical_ac": "P38124-1", "length": 548, "uniprot_id": "FLR1_YEAST", "protein_name": "Fluconazole resistance protein 1", "refseq_ac": "NP_009562", "refseq_name": "Flr1p", "gene_name": "FLR1", "gene_names_uniprotkb": "FLR1; YBR0120", "gene_names_refseq": "FLR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38124", "url": "https://www.uniprot.org/uniprotkb/P38124" } ], "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": "P38124", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38124" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000212", "url": "https://www.yeastgenome.org/locus/S000000212", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38124", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38124", "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": "KKECKPDYDIECGPNRSCSE", "down_seq": "STDSDSSGSQIEKNDPFRVD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000212", "url": "https://www.yeastgenome.org/locus/S000000212" }, { "database": "iPTMnet", "id": "P38124", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38124" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser64" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "64", "end_pos": "64" } ] } ], "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": "P38142-1.63.63", "start_pos": 63, "end_pos": 63, "uniprot_canonical_ac": "P38142-1", "length": 488, "uniprot_id": "YB91_YEAST", "protein_name": "Probable metabolite transport protein YBR241C", "refseq_ac": "", "refseq_name": "", "gene_name": "YBR1625", "gene_names_uniprotkb": "YBR1625", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38142", "url": "https://www.uniprot.org/uniprotkb/P38142" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38142", "url": "https://www.uniprot.org/uniprotkb/P38142", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "AELNAPQEFLSCSRFEAPDE", "down_seq": "ISYDDTWVGQHGLKQCIALT", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn63", "evidence": [ { "id": "P38142", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38142#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "63", "end_pos": "63" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38145-1.70.70", "start_pos": 70, "end_pos": 70, "uniprot_canonical_ac": "P38145-1", "length": 238, "uniprot_id": "RISA_YEAST", "protein_name": "Riboflavin synthase", "refseq_ac": "NP_009815", "refseq_name": "riboflavin synthase", "gene_name": "RIB5", "gene_names_uniprotkb": "RIB5; YBR1724", "gene_names_refseq": "RIB5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38145", "url": "https://www.uniprot.org/uniprotkb/P38145" } ], "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": "P38145", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38145" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000460", "url": "https://www.yeastgenome.org/locus/S000000460", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38145", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38145", "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": "VNGVCLTVTEFNNDSFKVGI", "down_seq": "PETIKRSNVASWIQGTQVNL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000460", "url": "https://www.yeastgenome.org/locus/S000000460" }, { "database": "iPTMnet", "id": "P38145", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38145" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser70" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "70", "end_pos": "70" }, { "start_pos": "95", "end_pos": "95" } ] } ], "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": "P38145-1.95.95", "start_pos": 95, "end_pos": 95, "uniprot_canonical_ac": "P38145-1", "length": 238, "uniprot_id": "RISA_YEAST", "protein_name": "Riboflavin synthase", "refseq_ac": "NP_009815", "refseq_name": "riboflavin synthase", "gene_name": "RIB5", "gene_names_uniprotkb": "RIB5; YBR1724", "gene_names_refseq": "RIB5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38145", "url": "https://www.uniprot.org/uniprotkb/P38145" } ], "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": "P38145", "url": "https://www.uniprot.org/uniprotkb/P38145" }, { "database": "iPTMnet", "id": "P38145", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38145" } ], "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": "P38145", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38145" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38145", "url": "https://www.uniprot.org/uniprotkb/P38145", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000460", "url": "https://www.yeastgenome.org/locus/S000000460", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38145", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38145", "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": "KRSNVASWIQGTQVNLERAV", "down_seq": "QDVRFGGHYVQGHVDTVANI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38145", "url": "https://www.uniprot.org/uniprotkb/P38145" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000460", "url": "https://www.yeastgenome.org/locus/S000000460" }, { "database": "iPTMnet", "id": "P38145", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38145" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser95" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "70", "end_pos": "70" }, { "start_pos": "95", "end_pos": "95" } ] } ], "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": "P38151-1.13.13", "start_pos": 13, "end_pos": 13, "uniprot_canonical_ac": "P38151-1", "length": 413, "uniprot_id": "PBP2_YEAST", "protein_name": "PAB1-binding protein 2", "refseq_ac": "NP_009792", "refseq_name": "telomere maintenance protein PBP2", "gene_name": "PBP2", "gene_names_uniprotkb": "PBP2; YBR1531", "gene_names_refseq": "HEK1; PBP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38151", "url": "https://www.uniprot.org/uniprotkb/P38151" } ], "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": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000437", "url": "https://www.yeastgenome.org/locus/S000000437", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151", "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": "MSTETTKPSITT", "down_seq": "PTTVLVSPNTLKRKKGEDTS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000437", "url": "https://www.yeastgenome.org/locus/S000000437" }, { "database": "iPTMnet", "id": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr13" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38151-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38151-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38151-1.23.23", "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": "P38151-1.16.16", "start_pos": 16, "end_pos": 16, "uniprot_canonical_ac": "P38151-1", "length": 413, "uniprot_id": "PBP2_YEAST", "protein_name": "PAB1-binding protein 2", "refseq_ac": "NP_009792", "refseq_name": "telomere maintenance protein PBP2", "gene_name": "PBP2", "gene_names_uniprotkb": "PBP2; YBR1531", "gene_names_refseq": "HEK1; PBP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38151", "url": "https://www.uniprot.org/uniprotkb/P38151" } ], "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": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000437", "url": "https://www.yeastgenome.org/locus/S000000437", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151", "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": "MSTETTKPSITTTPT", "down_seq": "VLVSPNTLKRKKGEDTSEEQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000437", "url": "https://www.yeastgenome.org/locus/S000000437" }, { "database": "iPTMnet", "id": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr16" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38151-1.13.13", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38151-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38151-1.23.23", "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": "P38151-1.20.20", "start_pos": 20, "end_pos": 20, "uniprot_canonical_ac": "P38151-1", "length": 413, "uniprot_id": "PBP2_YEAST", "protein_name": "PAB1-binding protein 2", "refseq_ac": "NP_009792", "refseq_name": "telomere maintenance protein PBP2", "gene_name": "PBP2", "gene_names_uniprotkb": "PBP2; YBR1531", "gene_names_refseq": "HEK1; PBP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38151", "url": "https://www.uniprot.org/uniprotkb/P38151" } ], "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": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" } ], "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": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" } ], "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": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" } ], "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": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151", "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" ] }, { "id": "S000000437", "url": "https://www.yeastgenome.org/locus/S000000437", "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": "", "down_seq": "PNTLKRKKGEDTSEEQLEAE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" }, { "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" }, { "database": "SGD", "id": "S000000437", "url": "https://www.yeastgenome.org/locus/S000000437" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser20" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38151-1.13.13", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38151-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38151-1.23.23", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38151-1.224.224", "start_pos": 224, "end_pos": 224, "uniprot_canonical_ac": "P38151-1", "length": 413, "uniprot_id": "PBP2_YEAST", "protein_name": "PAB1-binding protein 2", "refseq_ac": "NP_009792", "refseq_name": "telomere maintenance protein PBP2", "gene_name": "PBP2", "gene_names_uniprotkb": "PBP2; YBR1531", "gene_names_refseq": "HEK1; PBP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38151", "url": "https://www.uniprot.org/uniprotkb/P38151" } ], "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": "P38151", "url": "https://www.uniprot.org/uniprotkb/P38151" }, { "database": "iPTMnet", "id": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "S000000437", "url": "https://www.yeastgenome.org/locus/S000000437", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151", "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": "DAIHIATFYISQTLLNFQME", "down_seq": "PQKNVKRSIYYQPTQFNSVL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000437", "url": "https://www.yeastgenome.org/locus/S000000437" }, { "database": "iPTMnet", "id": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Ser224" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "94", "end_pos": "94" } ] } ], "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": "P38151-1.23.23", "start_pos": 23, "end_pos": 23, "uniprot_canonical_ac": "P38151-1", "length": 413, "uniprot_id": "PBP2_YEAST", "protein_name": "PAB1-binding protein 2", "refseq_ac": "NP_009792", "refseq_name": "telomere maintenance protein PBP2", "gene_name": "PBP2", "gene_names_uniprotkb": "PBP2; YBR1531", "gene_names_refseq": "HEK1; PBP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38151", "url": "https://www.uniprot.org/uniprotkb/P38151" } ], "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": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000437", "url": "https://www.yeastgenome.org/locus/S000000437", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151", "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": "TETTKPSITTTPTTVLVSPN", "down_seq": "LKRKKGEDTSEEQLEAEIKR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000437", "url": "https://www.yeastgenome.org/locus/S000000437" }, { "database": "iPTMnet", "id": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr23" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38151-1.13.13", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38151-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38151-1.20.20", "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": "P38151-1.51.51", "start_pos": 51, "end_pos": 51, "uniprot_canonical_ac": "P38151-1", "length": 413, "uniprot_id": "PBP2_YEAST", "protein_name": "PAB1-binding protein 2", "refseq_ac": "NP_009792", "refseq_name": "telomere maintenance protein PBP2", "gene_name": "PBP2", "gene_names_uniprotkb": "PBP2; YBR1531", "gene_names_refseq": "HEK1; PBP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38151", "url": "https://www.uniprot.org/uniprotkb/P38151" } ], "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": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" } ], "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", "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": "P38151", "url": "https://www.uniprot.org/uniprotkb/P38151" }, { "database": "iPTMnet", "id": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" } ], "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": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" } ], "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": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" } ], "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": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151", "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": "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": "S000000437", "url": "https://www.yeastgenome.org/locus/S000000437", "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": "DTSEEQLEAEIKRVALKDAD", "down_seq": "HSDNDHDSPDNVPSDVHLRM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" }, { "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000437", "url": "https://www.yeastgenome.org/locus/S000000437" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser51" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38151-1.53.53", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38151-1.59.59", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38151-1.53.53", "start_pos": 53, "end_pos": 53, "uniprot_canonical_ac": "P38151-1", "length": 413, "uniprot_id": "PBP2_YEAST", "protein_name": "PAB1-binding protein 2", "refseq_ac": "NP_009792", "refseq_name": "telomere maintenance protein PBP2", "gene_name": "PBP2", "gene_names_uniprotkb": "PBP2; YBR1531", "gene_names_refseq": "HEK1; PBP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38151", "url": "https://www.uniprot.org/uniprotkb/P38151" } ], "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": "P38151", "url": "https://www.uniprot.org/uniprotkb/P38151" }, { "database": "iPTMnet", "id": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" } ], "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": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" } ], "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", "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": "P38151", "url": "https://www.uniprot.org/uniprotkb/P38151" }, { "database": "iPTMnet", "id": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" } ], "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": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "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": "P38151", "url": "https://www.uniprot.org/uniprotkb/P38151" }, { "database": "iPTMnet", "id": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" } ], "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": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" } ], "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": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" } ], "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": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151", "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": "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": "S000000437", "url": "https://www.yeastgenome.org/locus/S000000437", "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": "SEEQLEAEIKRVALKDADSH", "down_seq": "DNDHDSPDNVPSDVHLRMLC", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" }, { "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": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000437", "url": "https://www.yeastgenome.org/locus/S000000437" }, { "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": "Ser53" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38151-1.51.51", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38151-1.59.59", "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38151-1.59.59", "start_pos": 59, "end_pos": 59, "uniprot_canonical_ac": "P38151-1", "length": 413, "uniprot_id": "PBP2_YEAST", "protein_name": "PAB1-binding protein 2", "refseq_ac": "NP_009792", "refseq_name": "telomere maintenance protein PBP2", "gene_name": "PBP2", "gene_names_uniprotkb": "PBP2; YBR1531", "gene_names_refseq": "HEK1; PBP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38151", "url": "https://www.uniprot.org/uniprotkb/P38151" } ], "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", "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": "P38151", "url": "https://www.uniprot.org/uniprotkb/P38151" }, { "database": "iPTMnet", "id": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" } ], "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": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" } ], "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": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" } ], "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": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" } ], "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": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151", "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": "S000000437", "url": "https://www.yeastgenome.org/locus/S000000437", "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": "AEIKRVALKDADSHSDNDHD", "down_seq": "PDNVPSDVHLRMLCLVKHAS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" }, { "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": "S000000437", "url": "https://www.yeastgenome.org/locus/S000000437" }, { "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": "Ser59" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38151-1.51.51", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38151-1.53.53", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38151-1.94.94", "start_pos": 94, "end_pos": 94, "uniprot_canonical_ac": "P38151-1", "length": 413, "uniprot_id": "PBP2_YEAST", "protein_name": "PAB1-binding protein 2", "refseq_ac": "NP_009792", "refseq_name": "telomere maintenance protein PBP2", "gene_name": "PBP2", "gene_names_uniprotkb": "PBP2; YBR1531", "gene_names_refseq": "HEK1; PBP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38151", "url": "https://www.uniprot.org/uniprotkb/P38151" } ], "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": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000437", "url": "https://www.yeastgenome.org/locus/S000000437", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151", "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": "LVKHASLIVGHKGATISRIK", "down_seq": "ETSARINISNNIRGVPERIV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000437", "url": "https://www.yeastgenome.org/locus/S000000437" }, { "database": "iPTMnet", "id": "P38151", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38151" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser94" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "94", "end_pos": "94" } ] } ], "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": "P38152-1.198.198", "start_pos": 198, "end_pos": 198, "uniprot_canonical_ac": "P38152-1", "length": 299, "uniprot_id": "TXTP_YEAST", "protein_name": "Tricarboxylate transport protein", "refseq_ac": "NP_009850", "refseq_name": "Ctp1p", "gene_name": "CTP1", "gene_names_uniprotkb": "CTP1; YBR2039", "gene_names_refseq": "CTP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38152", "url": "https://www.uniprot.org/uniprotkb/P38152" } ], "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": "P38152", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38152" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P38152", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38152", "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": "VSMRQAANQAVRLGCYNKIK", "down_seq": "LIQDYTDSPKDKPLSSGLTF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38152", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38152" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr198" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "198", "end_pos": "198" } ] } ], "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": "P38172-1.20.20", "start_pos": 20, "end_pos": 20, "uniprot_canonical_ac": "P38172-1", "length": 270, "uniprot_id": "MRX3_YEAST", "protein_name": "MIOREX complex component 3", "refseq_ac": "NP_009457", "refseq_name": "Mrx3p", "gene_name": "MRX3", "gene_names_uniprotkb": "MRX3; YBL0835", "gene_names_refseq": "MRX3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38172", "url": "https://www.uniprot.org/uniprotkb/P38172" } ], "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": "", "down_seq": "AGFTLGVGAFVKAWPDDAGV", "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": "Thr20", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "20", "end_pos": "20" } ] } ], "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": 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": "P38197-1.13.13", "start_pos": 13, "end_pos": 13, "uniprot_canonical_ac": "P38197-1", "length": 257, "uniprot_id": "PLPHP_YEAST", "protein_name": "Pyridoxal phosphate homeostasis protein", "refseq_ac": "NP_009517", "refseq_name": "pyridoxal phosphate homeostasis protein", "gene_name": "YBL0413", "gene_names_uniprotkb": "YBL0413", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38197", "url": "https://www.uniprot.org/uniprotkb/P38197" } ], "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": "P38197", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38197" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] } ], "crossref": [ { "id": "S000000132", "url": "https://www.yeastgenome.org/locus/S000000132", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38197", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38197", "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": "MSTGITYDEDRK", "down_seq": "QLIAQYESVREVVNAEAKNV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000132", "url": "https://www.yeastgenome.org/locus/S000000132" }, { "database": "iPTMnet", "id": "P38197", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38197" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ], "site_lbl": "Thr13" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38197-1.6.6", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38197-1.189.189", "start_pos": 189, "end_pos": 189, "uniprot_canonical_ac": "P38197-1", "length": 257, "uniprot_id": "PLPHP_YEAST", "protein_name": "Pyridoxal phosphate homeostasis protein", "refseq_ac": "NP_009517", "refseq_name": "pyridoxal phosphate homeostasis protein", "gene_name": "YBL0413", "gene_names_uniprotkb": "YBL0413", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38197", "url": "https://www.uniprot.org/uniprotkb/P38197" } ], "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": "P38197", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38197" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000132", "url": "https://www.yeastgenome.org/locus/S000000132", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38197", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38197", "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": "SEECKYIKLNGLMTIGSWNV", "down_seq": "HEDSKENRDFATLVEWKKKI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000132", "url": "https://www.yeastgenome.org/locus/S000000132" }, { "database": "iPTMnet", "id": "P38197", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38197" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser189" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P38197-1.193.193", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38197-1.193.193", "start_pos": 193, "end_pos": 193, "uniprot_canonical_ac": "P38197-1", "length": 257, "uniprot_id": "PLPHP_YEAST", "protein_name": "Pyridoxal phosphate homeostasis protein", "refseq_ac": "NP_009517", "refseq_name": "pyridoxal phosphate homeostasis protein", "gene_name": "YBL0413", "gene_names_uniprotkb": "YBL0413", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38197", "url": "https://www.uniprot.org/uniprotkb/P38197" } ], "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": "P38197", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38197" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000132", "url": "https://www.yeastgenome.org/locus/S000000132", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38197", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38197", "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": "KYIKLNGLMTIGSWNVSHED", "down_seq": "KENRDFATLVEWKKKIDAKF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000132", "url": "https://www.yeastgenome.org/locus/S000000132" }, { "database": "iPTMnet", "id": "P38197", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38197" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser193" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38197-1.189.189", "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": "P38197-1.224.224", "start_pos": 224, "end_pos": 224, "uniprot_canonical_ac": "P38197-1", "length": 257, "uniprot_id": "PLPHP_YEAST", "protein_name": "Pyridoxal phosphate homeostasis protein", "refseq_ac": "NP_009517", "refseq_name": "pyridoxal phosphate homeostasis protein", "gene_name": "YBL0413", "gene_names_uniprotkb": "YBL0413", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38197", "url": "https://www.uniprot.org/uniprotkb/P38197" } ], "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": "P38197", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38197" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000132", "url": "https://www.yeastgenome.org/locus/S000000132", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38197", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38197", "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": "EWKKKIDAKFGTSLKLSMGM", "down_seq": "ADFREAIRQGTAEVRIGTDI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000132", "url": "https://www.yeastgenome.org/locus/S000000132" }, { "database": "iPTMnet", "id": "P38197", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38197" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser224" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "upstream", "id": "P38197-1.242.242", "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": "P38197-1.242.242", "start_pos": 242, "end_pos": 242, "uniprot_canonical_ac": "P38197-1", "length": 257, "uniprot_id": "PLPHP_YEAST", "protein_name": "Pyridoxal phosphate homeostasis protein", "refseq_ac": "NP_009517", "refseq_name": "pyridoxal phosphate homeostasis protein", "gene_name": "YBL0413", "gene_names_uniprotkb": "YBL0413", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38197", "url": "https://www.uniprot.org/uniprotkb/P38197" } ], "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": "P38197", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38197" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000132", "url": "https://www.yeastgenome.org/locus/S000000132", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38197", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38197", "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": "GMSADFREAIRQGTAEVRIG", "down_seq": "DIFGARPPKNEARII", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000132", "url": "https://www.yeastgenome.org/locus/S000000132" }, { "database": "iPTMnet", "id": "P38197", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38197" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr242" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38197-1.224.224", "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": "P38197-1.40.40", "start_pos": 40, "end_pos": 40, "uniprot_canonical_ac": "P38197-1", "length": 257, "uniprot_id": "PLPHP_YEAST", "protein_name": "Pyridoxal phosphate homeostasis protein", "refseq_ac": "NP_009517", "refseq_name": "pyridoxal phosphate homeostasis protein", "gene_name": "YBL0413", "gene_names_uniprotkb": "YBL0413", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38197", "url": "https://www.uniprot.org/uniprotkb/P38197" } ], "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": "P38197", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38197" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000132", "url": "https://www.yeastgenome.org/locus/S000000132", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38197", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38197", "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": "ESVREVVNAEAKNVHVNENA", "down_seq": "KILLLVVSKLKPASDIQILY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000132", "url": "https://www.yeastgenome.org/locus/S000000132" }, { "database": "iPTMnet", "id": "P38197", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38197" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser40" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "6", "end_pos": "6" } ] } ], "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": "P38197-1.6.6", "start_pos": 6, "end_pos": 6, "uniprot_canonical_ac": "P38197-1", "length": 257, "uniprot_id": "PLPHP_YEAST", "protein_name": "Pyridoxal phosphate homeostasis protein", "refseq_ac": "NP_009517", "refseq_name": "pyridoxal phosphate homeostasis protein", "gene_name": "YBL0413", "gene_names_uniprotkb": "YBL0413", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38197", "url": "https://www.uniprot.org/uniprotkb/P38197" } ], "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": "P38197", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38197" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000132", "url": "https://www.yeastgenome.org/locus/S000000132", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38197", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38197", "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": "MSTGI", "down_seq": "YDEDRKTQLIAQYESVREVV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000132", "url": "https://www.yeastgenome.org/locus/S000000132" }, { "database": "iPTMnet", "id": "P38197", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38197" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr6" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "P38197-1.13.13", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38229-1.265.265", "start_pos": 265, "end_pos": 265, "uniprot_canonical_ac": "P38229-1", "length": 639, "uniprot_id": "GIP1_YEAST", "protein_name": "GLC7-interacting protein 1", "refseq_ac": "NP_009601", "refseq_name": "protein phosphatase regulator GIP1", "gene_name": "GIP1", "gene_names_uniprotkb": "GIP1; YBR0420", "gene_names_refseq": "GIP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38229", "url": "https://www.uniprot.org/uniprotkb/P38229" } ], "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": "KRLCLKQYSDEPESDHSMES", "down_seq": "PSIYITKEVQERIEALSSTD", "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": "Thr265", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "265", "end_pos": "265" } ] } ], "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": 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": "P38230-1.131.131", "start_pos": 131, "end_pos": 131, "uniprot_canonical_ac": "P38230-1", "length": 334, "uniprot_id": "QOR_YEAST", "protein_name": "Zeta-crystallin", "refseq_ac": "NP_009602", "refseq_name": "NADPH:quinone reductase", "gene_name": "ZTA1", "gene_names_uniprotkb": "ZTA1; YBR0421", "gene_names_refseq": "ZTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structural insights into the cofactor-assisted substrate recognition of yeast quinone oxidoreductase Zta1.", "journal": "Journal of structural biology", "date": "2011-10", "authors": "Guo Peng-Chao, Ma Xiao-Xiao, Bao Zhang-Zhi, Ma Jin-Di, Chen Yuxing, Zhou Cong-Zhao", "evidence": [ { "database": "UniProtKB", "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230" } ], "reference": [ { "type": "PubMed", "id": "21820057", "url": "https://glygen.org/publication/PubMed/21820057" } ] } ], "crossref": [ { "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21820057", "url": "https://glygen.org/publication/PubMed/21820057", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "L", "start_aa": "L", "up_seq": "VMKLPKGTSDEELKLYAAGL", "down_seq": "QVLTALSFTNEAYHVKKGDY", "mutagenesis": [ { "sequence_org": "L", "sequence_mut": "A", "comment": "Decreased quinone reductase (NADPH) activity. Decreased affinity for 9,10-phenanthroquinone.", "evidence": [ { "database": "UniProtKB", "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230" }, { "database": "PubMed", "id": "21820057", "url": "https://glygen.org/publication/PubMed/21820057" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "131" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "272", "end_pos": "272" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "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": "P38230-1.270.270", "start_pos": 270, "end_pos": 270, "uniprot_canonical_ac": "P38230-1", "length": 334, "uniprot_id": "QOR_YEAST", "protein_name": "Zeta-crystallin", "refseq_ac": "NP_009602", "refseq_name": "NADPH:quinone reductase", "gene_name": "ZTA1", "gene_names_uniprotkb": "ZTA1; YBR0421", "gene_names_refseq": "ZTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structural insights into the cofactor-assisted substrate recognition of yeast quinone oxidoreductase Zta1.", "journal": "Journal of structural biology", "date": "2011-10", "authors": "Guo Peng-Chao, Ma Xiao-Xiao, Bao Zhang-Zhi, Ma Jin-Di, Chen Yuxing, Zhou Cong-Zhao", "evidence": [ { "database": "UniProtKB", "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230" } ], "reference": [ { "type": "PubMed", "id": "21820057", "url": "https://glygen.org/publication/PubMed/21820057" } ] } ], "crossref": [ { "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21820057", "url": "https://glygen.org/publication/PubMed/21820057", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "SGLIPPFSITRLSPKNITLV", "down_seq": "PQLYGYIADPEEWKYYSDEF", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "Increased quinone reductase (NADPH) activity. No effect on affinity for 1,2-naphthoquinone and 9,10-phenanthroquinone.", "evidence": [ { "database": "UniProtKB", "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230" }, { "database": "PubMed", "id": "21820057", "url": "https://glygen.org/publication/PubMed/21820057" } ] }, { "sequence_org": "R", "sequence_mut": "G", "comment": "Increased quinone reductase (NADPH) activity. No effect on affinity for 1,2-naphthoquinone and 9,10-phenanthroquinone.", "evidence": [ { "database": "UniProtKB", "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230" }, { "database": "PubMed", "id": "21820057", "url": "https://glygen.org/publication/PubMed/21820057" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "131" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "272", "end_pos": "272" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "59", "end_pos": "59" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38230-1.272.272", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38230-1.273.273", "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": "P38230-1.272.272", "start_pos": 272, "end_pos": 272, "uniprot_canonical_ac": "P38230-1", "length": 334, "uniprot_id": "QOR_YEAST", "protein_name": "Zeta-crystallin", "refseq_ac": "NP_009602", "refseq_name": "NADPH:quinone reductase", "gene_name": "ZTA1", "gene_names_uniprotkb": "ZTA1; YBR0421", "gene_names_refseq": "ZTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structural insights into the cofactor-assisted substrate recognition of yeast quinone oxidoreductase Zta1.", "journal": "Journal of structural biology", "date": "2011-10", "authors": "Guo Peng-Chao, Ma Xiao-Xiao, Bao Zhang-Zhi, Ma Jin-Di, Chen Yuxing, Zhou Cong-Zhao", "evidence": [ { "database": "UniProtKB", "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230" } ], "reference": [ { "type": "PubMed", "id": "21820057", "url": "https://glygen.org/publication/PubMed/21820057" } ] } ], "crossref": [ { "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21820057", "url": "https://glygen.org/publication/PubMed/21820057", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Q", "start_aa": "Q", "up_seq": "LIPPFSITRLSPKNITLVRP", "down_seq": "LYGYIADPEEWKYYSDEFFG", "mutagenesis": [ { "sequence_org": "Q", "sequence_mut": "A", "comment": "No effect on quinone reductase (NADPH) activity. No effect on affinity for 1,2-naphthoquinone and 9,10-phenanthroquinone.", "evidence": [ { "database": "UniProtKB", "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230" }, { "database": "PubMed", "id": "21820057", "url": "https://glygen.org/publication/PubMed/21820057" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "131" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "272", "end_pos": "272" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "59", "end_pos": "59" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38230-1.270.270", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38230-1.273.273", "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": "P38230-1.273.273", "start_pos": 273, "end_pos": 273, "uniprot_canonical_ac": "P38230-1", "length": 334, "uniprot_id": "QOR_YEAST", "protein_name": "Zeta-crystallin", "refseq_ac": "NP_009602", "refseq_name": "NADPH:quinone reductase", "gene_name": "ZTA1", "gene_names_uniprotkb": "ZTA1; YBR0421", "gene_names_refseq": "ZTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structural insights into the cofactor-assisted substrate recognition of yeast quinone oxidoreductase Zta1.", "journal": "Journal of structural biology", "date": "2011-10", "authors": "Guo Peng-Chao, Ma Xiao-Xiao, Bao Zhang-Zhi, Ma Jin-Di, Chen Yuxing, Zhou Cong-Zhao", "evidence": [ { "database": "UniProtKB", "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230" } ], "reference": [ { "type": "PubMed", "id": "21820057", "url": "https://glygen.org/publication/PubMed/21820057" } ] } ], "crossref": [ { "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21820057", "url": "https://glygen.org/publication/PubMed/21820057", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "L", "start_aa": "L", "up_seq": "IPPFSITRLSPKNITLVRPQ", "down_seq": "YGYIADPEEWKYYSDEFFGL", "mutagenesis": [ { "sequence_org": "L", "sequence_mut": "A", "comment": "Decreased quinone reductase (NADPH) activity. No effect on affinity for 1,2-naphthoquinone and 9,10-phenanthroquinone.", "evidence": [ { "database": "UniProtKB", "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230" }, { "database": "PubMed", "id": "21820057", "url": "https://glygen.org/publication/PubMed/21820057" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "131" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "272", "end_pos": "272" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "59", "end_pos": "59" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38230-1.270.270", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38230-1.272.272", "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": "P38230-1.48.48", "start_pos": 48, "end_pos": 48, "uniprot_canonical_ac": "P38230-1", "length": 334, "uniprot_id": "QOR_YEAST", "protein_name": "Zeta-crystallin", "refseq_ac": "NP_009602", "refseq_name": "NADPH:quinone reductase", "gene_name": "ZTA1", "gene_names_uniprotkb": "ZTA1; YBR0421", "gene_names_refseq": "ZTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structural insights into the cofactor-assisted substrate recognition of yeast quinone oxidoreductase Zta1.", "journal": "Journal of structural biology", "date": "2011-10", "authors": "Guo Peng-Chao, Ma Xiao-Xiao, Bao Zhang-Zhi, Ma Jin-Di, Chen Yuxing, Zhou Cong-Zhao", "evidence": [ { "database": "UniProtKB", "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230" } ], "reference": [ { "type": "PubMed", "id": "21820057", "url": "https://glygen.org/publication/PubMed/21820057" } ] } ], "crossref": [ { "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21820057", "url": "https://glygen.org/publication/PubMed/21820057", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "YPVPSISEEELLIKNKYTGV", "down_seq": "YIESYFRKGIYPCEKPYVLG", "mutagenesis": [ { "sequence_org": "N", "sequence_mut": "A", "comment": "Decreased quinone reductase (NADPH) activity. Decreased affinity for 1,2-naphthoquinone and 9,10-phenanthroquinone.", "evidence": [ { "database": "UniProtKB", "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230" }, { "database": "PubMed", "id": "21820057", "url": "https://glygen.org/publication/PubMed/21820057" } ] }, { "sequence_org": "N", "sequence_mut": "L", "comment": "Decreased quinone reductase (NADPH) activity. Decreased affinity for 1,2-naphthoquinone and 9,10-phenanthroquinone.", "evidence": [ { "database": "UniProtKB", "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230" }, { "database": "PubMed", "id": "21820057", "url": "https://glygen.org/publication/PubMed/21820057" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "131" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "272", "end_pos": "272" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "59", "end_pos": "59" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38230-1.50.50", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38230-1.59.59", "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": "P38230-1.50.50", "start_pos": 50, "end_pos": 50, "uniprot_canonical_ac": "P38230-1", "length": 334, "uniprot_id": "QOR_YEAST", "protein_name": "Zeta-crystallin", "refseq_ac": "NP_009602", "refseq_name": "NADPH:quinone reductase", "gene_name": "ZTA1", "gene_names_uniprotkb": "ZTA1; YBR0421", "gene_names_refseq": "ZTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structural insights into the cofactor-assisted substrate recognition of yeast quinone oxidoreductase Zta1.", "journal": "Journal of structural biology", "date": "2011-10", "authors": "Guo Peng-Chao, Ma Xiao-Xiao, Bao Zhang-Zhi, Ma Jin-Di, Chen Yuxing, Zhou Cong-Zhao", "evidence": [ { "database": "UniProtKB", "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230" } ], "reference": [ { "type": "PubMed", "id": "21820057", "url": "https://glygen.org/publication/PubMed/21820057" } ] } ], "crossref": [ { "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21820057", "url": "https://glygen.org/publication/PubMed/21820057", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "I", "start_aa": "I", "up_seq": "VPSISEEELLIKNKYTGVNY", "down_seq": "ESYFRKGIYPCEKPYVLGRE", "mutagenesis": [ { "sequence_org": "I", "sequence_mut": "A", "comment": "No effect on quinone reductase (NADPH) activity. Decreased affinity for 1,2-naphthoquinone and 9,10-phenanthroquinone.", "evidence": [ { "database": "UniProtKB", "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230" }, { "database": "PubMed", "id": "21820057", "url": "https://glygen.org/publication/PubMed/21820057" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "131" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "272", "end_pos": "272" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "59", "end_pos": "59" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38230-1.48.48", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38230-1.59.59", "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": "P38230-1.59.59", "start_pos": 59, "end_pos": 59, "uniprot_canonical_ac": "P38230-1", "length": 334, "uniprot_id": "QOR_YEAST", "protein_name": "Zeta-crystallin", "refseq_ac": "NP_009602", "refseq_name": "NADPH:quinone reductase", "gene_name": "ZTA1", "gene_names_uniprotkb": "ZTA1; YBR0421", "gene_names_refseq": "ZTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structural insights into the cofactor-assisted substrate recognition of yeast quinone oxidoreductase Zta1.", "journal": "Journal of structural biology", "date": "2011-10", "authors": "Guo Peng-Chao, Ma Xiao-Xiao, Bao Zhang-Zhi, Ma Jin-Di, Chen Yuxing, Zhou Cong-Zhao", "evidence": [ { "database": "UniProtKB", "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230" } ], "reference": [ { "type": "PubMed", "id": "21820057", "url": "https://glygen.org/publication/PubMed/21820057" } ] } ], "crossref": [ { "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21820057", "url": "https://glygen.org/publication/PubMed/21820057", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "LIKNKYTGVNYIESYFRKGI", "down_seq": "PCEKPYVLGREASGTVVAKG", "mutagenesis": [ { "sequence_org": "Y", "sequence_mut": "A", "comment": "Increased quinone reductase (NADPH) activity. Decreased affinity for 1,2-naphthoquinone and 9,10-phenanthroquinone.", "evidence": [ { "database": "UniProtKB", "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230" }, { "database": "PubMed", "id": "21820057", "url": "https://glygen.org/publication/PubMed/21820057" } ] }, { "sequence_org": "Y", "sequence_mut": "F", "comment": "Increased quinone reductase (NADPH) activity. Increased affinity for 9,10-phenanthroquinone.", "evidence": [ { "database": "UniProtKB", "id": "P38230", "url": "https://www.uniprot.org/uniprotkb/P38230" }, { "database": "PubMed", "id": "21820057", "url": "https://glygen.org/publication/PubMed/21820057" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "131" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "272", "end_pos": "272" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "59", "end_pos": "59" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38230-1.48.48", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38230-1.50.50", "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": "P38271-1.162.162", "start_pos": 162, "end_pos": 162, "uniprot_canonical_ac": "P38271-1", "length": 328, "uniprot_id": "OPY1_YEAST", "protein_name": "Pleckstrin homology domain protein OPY1", "refseq_ac": "NP_009687", "refseq_name": "Opy1p", "gene_name": "OPY1", "gene_names_uniprotkb": "OPY1; YBR1004", "gene_names_refseq": "OPY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38271", "url": "https://www.uniprot.org/uniprotkb/P38271" } ], "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": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000333", "url": "https://www.yeastgenome.org/locus/S000000333", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271", "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": "KIALEKFLSSPSGNESVTTG", "down_seq": "DYDEEEDDDDLIVVDEKAGP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000333", "url": "https://www.yeastgenome.org/locus/S000000333" }, { "database": "iPTMnet", "id": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser162" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "162", "end_pos": "162" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "33", "end_pos": "33" } ] } ], "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": "P38271-1.184.184", "start_pos": 184, "end_pos": 184, "uniprot_canonical_ac": "P38271-1", "length": 328, "uniprot_id": "OPY1_YEAST", "protein_name": "Pleckstrin homology domain protein OPY1", "refseq_ac": "NP_009687", "refseq_name": "Opy1p", "gene_name": "OPY1", "gene_names_uniprotkb": "OPY1; YBR1004", "gene_names_refseq": "OPY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38271", "url": "https://www.uniprot.org/uniprotkb/P38271" } ], "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": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271" } ], "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": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000333", "url": "https://www.yeastgenome.org/locus/S000000333", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271", "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": "YDEEEDDDDLIVVDEKAGPS", "down_seq": "SKHSCSLTMDEQLSREDKEF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000333", "url": "https://www.yeastgenome.org/locus/S000000333" }, { "database": "iPTMnet", "id": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser184" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "162", "end_pos": "162" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "33", "end_pos": "33" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38271-1.185.185", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38271-1.188.188", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38271-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38271-1.192.192", "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": "P38271-1.185.185", "start_pos": 185, "end_pos": 185, "uniprot_canonical_ac": "P38271-1", "length": 328, "uniprot_id": "OPY1_YEAST", "protein_name": "Pleckstrin homology domain protein OPY1", "refseq_ac": "NP_009687", "refseq_name": "Opy1p", "gene_name": "OPY1", "gene_names_uniprotkb": "OPY1; YBR1004", "gene_names_refseq": "OPY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38271", "url": "https://www.uniprot.org/uniprotkb/P38271" } ], "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": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000333", "url": "https://www.yeastgenome.org/locus/S000000333", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271", "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": "DEEEDDDDLIVVDEKAGPSS", "down_seq": "KHSCSLTMDEQLSREDKEFY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000333", "url": "https://www.yeastgenome.org/locus/S000000333" }, { "database": "iPTMnet", "id": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser185" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "162", "end_pos": "162" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "33", "end_pos": "33" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38271-1.184.184", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38271-1.188.188", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38271-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38271-1.192.192", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38271-1.188.188", "start_pos": 188, "end_pos": 188, "uniprot_canonical_ac": "P38271-1", "length": 328, "uniprot_id": "OPY1_YEAST", "protein_name": "Pleckstrin homology domain protein OPY1", "refseq_ac": "NP_009687", "refseq_name": "Opy1p", "gene_name": "OPY1", "gene_names_uniprotkb": "OPY1; YBR1004", "gene_names_refseq": "OPY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38271", "url": "https://www.uniprot.org/uniprotkb/P38271" } ], "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": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271" } ], "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": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000333", "url": "https://www.yeastgenome.org/locus/S000000333", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271", "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": "EDDDDLIVVDEKAGPSSSKH", "down_seq": "CSLTMDEQLSREDKEFYRMF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000333", "url": "https://www.yeastgenome.org/locus/S000000333" }, { "database": "iPTMnet", "id": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser188" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "162", "end_pos": "162" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "33", "end_pos": "33" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38271-1.184.184", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38271-1.185.185", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38271-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38271-1.192.192", "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": "P38271-1.190.190", "start_pos": 190, "end_pos": 190, "uniprot_canonical_ac": "P38271-1", "length": 328, "uniprot_id": "OPY1_YEAST", "protein_name": "Pleckstrin homology domain protein OPY1", "refseq_ac": "NP_009687", "refseq_name": "Opy1p", "gene_name": "OPY1", "gene_names_uniprotkb": "OPY1; YBR1004", "gene_names_refseq": "OPY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38271", "url": "https://www.uniprot.org/uniprotkb/P38271" } ], "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": "iPTMnet", "id": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271" } ], "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": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271" } ], "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": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000333", "url": "https://www.yeastgenome.org/locus/S000000333", "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": "DDDLIVVDEKAGPSSSKHSC", "down_seq": "LTMDEQLSREDKEFYRMFDP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000333", "url": "https://www.yeastgenome.org/locus/S000000333" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser190" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "162", "end_pos": "162" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "33", "end_pos": "33" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38271-1.184.184", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38271-1.185.185", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38271-1.188.188", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38271-1.192.192", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38271-1.192.192", "start_pos": 192, "end_pos": 192, "uniprot_canonical_ac": "P38271-1", "length": 328, "uniprot_id": "OPY1_YEAST", "protein_name": "Pleckstrin homology domain protein OPY1", "refseq_ac": "NP_009687", "refseq_name": "Opy1p", "gene_name": "OPY1", "gene_names_uniprotkb": "OPY1; YBR1004", "gene_names_refseq": "OPY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38271", "url": "https://www.uniprot.org/uniprotkb/P38271" } ], "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": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000333", "url": "https://www.yeastgenome.org/locus/S000000333", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271", "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": "DLIVVDEKAGPSSSKHSCSL", "down_seq": "MDEQLSREDKEFYRMFDPRN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000333", "url": "https://www.yeastgenome.org/locus/S000000333" }, { "database": "iPTMnet", "id": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr192" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "162", "end_pos": "162" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "33", "end_pos": "33" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38271-1.184.184", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38271-1.185.185", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38271-1.188.188", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38271-1.190.190", "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": "P38271-1.31.31", "start_pos": 31, "end_pos": 31, "uniprot_canonical_ac": "P38271-1", "length": 328, "uniprot_id": "OPY1_YEAST", "protein_name": "Pleckstrin homology domain protein OPY1", "refseq_ac": "NP_009687", "refseq_name": "Opy1p", "gene_name": "OPY1", "gene_names_uniprotkb": "OPY1; YBR1004", "gene_names_refseq": "OPY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38271", "url": "https://www.uniprot.org/uniprotkb/P38271" } ], "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": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000333", "url": "https://www.yeastgenome.org/locus/S000000333", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271", "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": "QHEILIASNLIKKPSTSQNK", "down_seq": "PTAQSSSGNNGAADGAPQGY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000333", "url": "https://www.yeastgenome.org/locus/S000000333" }, { "database": "iPTMnet", "id": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr31" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "162", "end_pos": "162" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "33", "end_pos": "33" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38271-1.33.33", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38271-1.33.33", "start_pos": 33, "end_pos": 33, "uniprot_canonical_ac": "P38271-1", "length": 328, "uniprot_id": "OPY1_YEAST", "protein_name": "Pleckstrin homology domain protein OPY1", "refseq_ac": "NP_009687", "refseq_name": "Opy1p", "gene_name": "OPY1", "gene_names_uniprotkb": "OPY1; YBR1004", "gene_names_refseq": "OPY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38271", "url": "https://www.uniprot.org/uniprotkb/P38271" } ], "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": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000333", "url": "https://www.yeastgenome.org/locus/S000000333", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271", "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": "EILIASNLIKKPSTSQNKTP", "down_seq": "AQSSSGNNGAADGAPQGYHH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000333", "url": "https://www.yeastgenome.org/locus/S000000333" }, { "database": "iPTMnet", "id": "P38271", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38271" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr33" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "162", "end_pos": "162" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "33", "end_pos": "33" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38271-1.31.31", "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": "P38281-1.19.19", "start_pos": 19, "end_pos": 19, "uniprot_canonical_ac": "P38281-1", "length": 316, "uniprot_id": "APD1_YEAST", "protein_name": "Actin patches distal protein 1", "refseq_ac": "NP_009709", "refseq_name": "Apd1p", "gene_name": "APD1", "gene_names_uniprotkb": "APD1; YBR1201", "gene_names_refseq": "APD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38281", "url": "https://www.uniprot.org/uniprotkb/P38281" } ], "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": "P38281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38281" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000355", "url": "https://www.yeastgenome.org/locus/S000000355", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38281", "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": "MAFLNIFKQKRGDEASQL", "down_seq": "AKGREEISQSIKICKSDDAA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000355", "url": "https://www.yeastgenome.org/locus/S000000355" }, { "database": "iPTMnet", "id": "P38281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38281" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser19" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "19", "end_pos": "19" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "upstream", "id": "P38281-1.35.35", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38281-1.35.35", "start_pos": 35, "end_pos": 35, "uniprot_canonical_ac": "P38281-1", "length": 316, "uniprot_id": "APD1_YEAST", "protein_name": "Actin patches distal protein 1", "refseq_ac": "NP_009709", "refseq_name": "Apd1p", "gene_name": "APD1", "gene_names_uniprotkb": "APD1; YBR1201", "gene_names_refseq": "APD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38281", "url": "https://www.uniprot.org/uniprotkb/P38281" } ], "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": "P38281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38281" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000355", "url": "https://www.yeastgenome.org/locus/S000000355", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38281", "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": "ASQLSAKGREEISQSIKICK", "down_seq": "DDAANEHSCSGDCKTEIEEG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000355", "url": "https://www.yeastgenome.org/locus/S000000355" }, { "database": "iPTMnet", "id": "P38281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38281" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser35" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "19", "end_pos": "19" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38281-1.19.19", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38281-1.76.76", "start_pos": 76, "end_pos": 76, "uniprot_canonical_ac": "P38281-1", "length": 316, "uniprot_id": "APD1_YEAST", "protein_name": "Actin patches distal protein 1", "refseq_ac": "NP_009709", "refseq_name": "Apd1p", "gene_name": "APD1", "gene_names_uniprotkb": "APD1; YBR1201", "gene_names_refseq": "APD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38281", "url": "https://www.uniprot.org/uniprotkb/P38281" } ], "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": "P38281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38281" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000355", "url": "https://www.yeastgenome.org/locus/S000000355", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38281", "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": "EQAFAKLKIEHETPLLNSSK", "down_seq": "PKIHFVVPTSQIDWQHDACL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000355", "url": "https://www.yeastgenome.org/locus/S000000355" }, { "database": "iPTMnet", "id": "P38281", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38281" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr76" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "19", "end_pos": "19" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "76", "end_pos": "76" } ] } ], "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": "P38288-1.236.236", "start_pos": 236, "end_pos": 236, "uniprot_canonical_ac": "P38288-1", "length": 455, "uniprot_id": "TOS1_YEAST", "protein_name": "Probable circularly permuted 1,3-beta-glucanase TOS1", "refseq_ac": "NP_009720", "refseq_name": "Tos1p", "gene_name": "TOS1", "gene_names_uniprotkb": "TOS1; YBR1213", "gene_names_refseq": "TOS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38288", "url": "https://www.uniprot.org/uniprotkb/P38288" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38288", "url": "https://www.uniprot.org/uniprotkb/P38288", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "SSNTNGDWSRGSYFVPGSTS", "down_seq": "CTFMNNQGGTAGSGVWSSCF", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn236", "evidence": [ { "id": "P38288", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38288#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "236", "end_pos": "236" }, { "start_pos": "417", "end_pos": "417" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "448", "end_pos": "448" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38288-1.417.417", "start_pos": 417, "end_pos": 417, "uniprot_canonical_ac": "P38288-1", "length": 455, "uniprot_id": "TOS1_YEAST", "protein_name": "Probable circularly permuted 1,3-beta-glucanase TOS1", "refseq_ac": "NP_009720", "refseq_name": "Tos1p", "gene_name": "TOS1", "gene_names_uniprotkb": "TOS1; YBR1213", "gene_names_refseq": "TOS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38288", "url": "https://www.uniprot.org/uniprotkb/P38288" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38288", "url": "https://www.uniprot.org/uniprotkb/P38288", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "GTQDYFERPTDGTLKAAVIF", "down_seq": "SSDKTIHIIEVDESFDATLS", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn417", "evidence": [ { "id": "P38288", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38288#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "236", "end_pos": "236" }, { "start_pos": "417", "end_pos": "417" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "448", "end_pos": "448" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38288-1.448.448", "start_pos": 448, "end_pos": 448, "uniprot_canonical_ac": "P38288-1", "length": 455, "uniprot_id": "TOS1_YEAST", "protein_name": "Probable circularly permuted 1,3-beta-glucanase TOS1", "refseq_ac": "NP_009720", "refseq_name": "Tos1p", "gene_name": "TOS1", "gene_names_uniprotkb": "TOS1; YBR1213", "gene_names_refseq": "TOS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38288", "url": "https://www.uniprot.org/uniprotkb/P38288" } ], "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": "P38288", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38288" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] } ], "crossref": [ { "id": "P38288", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38288", "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": "VDESFDATLSDDVVDQWLSK", "down_seq": "GSSAALP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38288", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38288" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ], "site_lbl": "Ser448" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "236", "end_pos": "236" }, { "start_pos": "417", "end_pos": "417" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "448", "end_pos": "448" } ] } ], "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": "P38314-1.71.71", "start_pos": 71, "end_pos": 71, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "PEESTPPTATAAAPGPGCAA", "down_seq": "PAPLRDEKPQFKLSAVPMTQ", "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": "Thr71", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "upstream", "id": "P38314-1.85.85", "categories": [ "glycosylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38314-1.90.90", "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": "P38314-1.85.85", "start_pos": 85, "end_pos": 85, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38314" }, { "database": "O-GlcNAc Atlas", "id": "P38314", "url": "https://oglcnac.org/atlas/detail/P38314" } ], "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": "P38314", "url": "https://oglcnac.org/atlas/detail/P38314", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GPGCAATPAPLRDEKPQFKL", "down_seq": "AVPMTQTPSQCLSCVHAQKW", "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": "Ser85", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38314", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38314" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38314-1.71.71", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38314-1.90.90", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38314-1.92.92", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38314-1.94.94", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38314-1.98.98", "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": "P38314-1.90.90", "start_pos": 90, "end_pos": 90, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38314" }, { "database": "O-GlcNAc Atlas", "id": "P38314", "url": "https://oglcnac.org/atlas/detail/P38314" } ], "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": "P38314", "url": "https://oglcnac.org/atlas/detail/P38314", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ATPAPLRDEKPQFKLSAVPM", "down_seq": "QTPSQCLSCVHAQKWQHIPL", "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": "Thr90", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38314", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38314" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38314-1.71.71", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38314-1.85.85", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38314-1.92.92", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38314-1.94.94", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38314-1.98.98", "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": "P38314-1.94.94", "start_pos": 94, "end_pos": 94, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38314" }, { "database": "O-GlcNAc Atlas", "id": "P38314", "url": "https://oglcnac.org/atlas/detail/P38314" } ], "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": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "https://oglcnac.org/atlas/detail/P38314", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314", "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418", "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": "PLRDEKPQFKLSAVPMTQTP", "down_seq": "QCLSCVHAQKWQHIPLSQLI", "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": "Ser94", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38314", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38314" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" }, { "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" }, { "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": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418" }, { "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": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38314-1.85.85", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38314-1.90.90", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38314-1.92.92", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38314-1.98.98", "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": 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": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38314-1.98.98", "start_pos": 98, "end_pos": 98, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38314" }, { "database": "O-GlcNAc Atlas", "id": "P38314", "url": "https://oglcnac.org/atlas/detail/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "https://oglcnac.org/atlas/detail/P38314", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314", "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": "EKPQFKLSAVPMTQTPSQCL", "down_seq": "CVHAQKWQHIPLSQLIEQNK", "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": "Ser98", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38314", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38314" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" }, { "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": "Ser98" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38314-1.85.85", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38314-1.90.90", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38314-1.92.92", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38314-1.94.94", "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": 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": "P38314-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38314" }, { "database": "O-GlcNAc Atlas", "id": "P38314", "url": "https://oglcnac.org/atlas/detail/P38314" } ], "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": "P38314", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38314", "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": "P38314", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38314" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "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": "P38314-1.212.212", "start_pos": 212, "end_pos": 212, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314", "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": "VGEMVKLTPKNPFYKLPENE", "down_seq": "LSTVMGILGSGVHRVAITNE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser212" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38314-1.214.214", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38314-1.214.214", "start_pos": 214, "end_pos": 214, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314", "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": "EMVKLTPKNPFYKLPENESL", "down_seq": "TVMGILGSGVHRVAITNEEM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser214" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38314-1.212.212", "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": "P38314-1.21.21", "start_pos": 21, "end_pos": 21, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314", "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": "MASTSNTFPPSQSNSSNNLP", "down_seq": "SRHASIVEMLSTPPLLPHVQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr21" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38314-1.22.22", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38314-1.26.26", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38314-1.33.33", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38314-1.22.22", "start_pos": 22, "end_pos": 22, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ASTSNTFPPSQSNSSNNLPT", "down_seq": "RHASIVEMLSTPPLLPHVQV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418" } ], "site_lbl": "Ser22" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38314-1.21.21", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38314-1.26.26", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38314-1.33.33", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38314-1.26.26", "start_pos": 26, "end_pos": 26, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418", "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": "NTFPPSQSNSSNNLPTSRHA", "down_seq": "IVEMLSTPPLLPHVQVNDTD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser26" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38314-1.21.21", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38314-1.22.22", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38314-1.33.33", "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": "P38314-1.312.312", "start_pos": 312, "end_pos": 312, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314", "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": "IQGEEPLIMGLYKMHVERIS", "down_seq": "IAVIDKQGNLLGNISVTDVK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser312" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "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": "P38314-1.33.33", "start_pos": 33, "end_pos": 33, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314", "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": "SNSSNNLPTSRHASIVEMLS", "down_seq": "PPLLPHVQVNDTDDKEQPEE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Thr33" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38314-1.21.21", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38314-1.22.22", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38314-1.26.26", "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": "P38314-1.406.406", "start_pos": 406, "end_pos": 406, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314", "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": "VATKSHRLWIVQPPESSTSA", "down_seq": "STNLTAANTAANAVSATAQS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser406" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "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": "P38314-1.435.435", "start_pos": 435, "end_pos": 435, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314", "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": "TAANAVSATAQSSANGATPM", "down_seq": "KSSSSTSLNSHSPLMTAMED", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser435" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38314-1.437.437", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38314-1.438.438", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38314-1.439.439", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38314-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38314-1.441.441", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38314-1.442.442", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38314-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38314-1.447.447", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38314-1.451.451", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38314-1.437.437", "start_pos": 437, "end_pos": 437, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] } ], "crossref": [ { "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "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": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418", "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" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ANAVSATAQSSANGATPMSK", "down_seq": "SSSTSLNSHSPLMTAMEDPP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "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": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ], "site_lbl": "Ser437" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38314-1.435.435", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38314-1.438.438", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38314-1.439.439", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38314-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38314-1.441.441", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38314-1.442.442", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38314-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38314-1.447.447", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38314-1.451.451", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38314-1.438.438", "start_pos": 438, "end_pos": 438, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418", "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" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NAVSATAQSSANGATPMSKS", "down_seq": "SSTSLNSHSPLMTAMEDPPS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser438" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38314-1.435.435", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38314-1.437.437", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38314-1.439.439", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38314-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38314-1.441.441", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38314-1.442.442", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38314-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38314-1.447.447", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38314-1.451.451", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38314-1.458.458", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38314-1.439.439", "start_pos": 439, "end_pos": 439, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418", "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" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AVSATAQSSANGATPMSKSS", "down_seq": "STSLNSHSPLMTAMEDPPSP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser439" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38314-1.435.435", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38314-1.437.437", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38314-1.438.438", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38314-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38314-1.441.441", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38314-1.442.442", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38314-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38314-1.447.447", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38314-1.451.451", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38314-1.458.458", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38314-1.440.440", "start_pos": 440, "end_pos": 440, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418", "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" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VSATAQSSANGATPMSKSSS", "down_seq": "TSLNSHSPLMTAMEDPPSPR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser440" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38314-1.435.435", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38314-1.437.437", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38314-1.438.438", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38314-1.439.439", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38314-1.441.441", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38314-1.442.442", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38314-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38314-1.447.447", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38314-1.451.451", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38314-1.458.458", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38314-1.441.441", "start_pos": 441, "end_pos": 441, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314", "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": "SATAQSSANGATPMSKSSSS", "down_seq": "SLNSHSPLMTAMEDPPSPRS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr441" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38314-1.435.435", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38314-1.437.437", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38314-1.438.438", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38314-1.439.439", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38314-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38314-1.442.442", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38314-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38314-1.447.447", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38314-1.451.451", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38314-1.458.458", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38314-1.442.442", "start_pos": 442, "end_pos": 442, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418", "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": "ATAQSSANGATPMSKSSSST", "down_seq": "LNSHSPLMTAMEDPPSPRSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser442" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38314-1.435.435", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38314-1.437.437", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38314-1.438.438", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38314-1.439.439", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38314-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38314-1.441.441", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38314-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38314-1.447.447", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38314-1.451.451", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38314-1.458.458", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38314-1.445.445", "start_pos": 445, "end_pos": 445, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314", "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": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418", "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": "QSSANGATPMSKSSSSTSLN", "down_seq": "HSPLMTAMEDPPSPRSSAIA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" }, { "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": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418" }, { "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": "Ser445" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38314-1.435.435", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38314-1.437.437", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38314-1.438.438", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38314-1.439.439", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38314-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38314-1.441.441", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38314-1.442.442", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38314-1.447.447", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38314-1.451.451", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38314-1.458.458", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38314-1.447.447", "start_pos": 447, "end_pos": 447, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314", "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": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418", "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": "SANGATPMSKSSSSTSLNSH", "down_seq": "PLMTAMEDPPSPRSSAIAIP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" }, { "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": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418" }, { "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": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38314-1.435.435", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38314-1.437.437", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38314-1.438.438", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38314-1.439.439", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38314-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38314-1.441.441", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38314-1.442.442", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38314-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38314-1.451.451", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38314-1.458.458", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38314-1.451.451", "start_pos": 451, "end_pos": 451, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314", "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": "ATPMSKSSSSTSLNSHSPLM", "down_seq": "AMEDPPSPRSSAIAIPPPSP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr451" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38314-1.435.435", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38314-1.437.437", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38314-1.438.438", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38314-1.439.439", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38314-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38314-1.441.441", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38314-1.442.442", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38314-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38314-1.447.447", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38314-1.458.458", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38314-1.470.470", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38314-1.458.458", "start_pos": 458, "end_pos": 458, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314", "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314", "database": "iPTMnet", "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": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418", "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": "SSSTSLNSHSPLMTAMEDPP", "down_seq": "PRSSAIAIPPPSPASSTNTP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" }, { "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" }, { "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": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418" }, { "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": "Ser458" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38314-1.438.438", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P38314-1.439.439", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P38314-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38314-1.441.441", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38314-1.442.442", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38314-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38314-1.447.447", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38314-1.451.451", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38314-1.470.470", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38314-1.470.470", "start_pos": 470, "end_pos": 470, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418", "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": "MTAMEDPPSPRSSAIAIPPP", "down_seq": "PASSTNTPNLFEKEYRTGKL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser470" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38314-1.451.451", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38314-1.458.458", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38314-1.517.517", "start_pos": 517, "end_pos": 517, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314", "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": "TDIINLLARKQTGNKEVDPQ", "down_seq": "ARRQRGSIAM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser517" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "P38314-1.524.524", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38314-1.524.524", "start_pos": 524, "end_pos": 524, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314", "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418", "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": "ARKQTGNKEVDPQSARRQRG", "down_seq": "IAM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" }, { "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser524" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38314-1.517.517", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38314-1.92.92", "start_pos": 92, "end_pos": 92, "uniprot_canonical_ac": "P38314-1", "length": 527, "uniprot_id": "SDS24_YEAST", "protein_name": "Protein SDS24", "refseq_ac": "NP_009773", "refseq_name": "Sds24p", "gene_name": "SDS24", "gene_names_uniprotkb": "SDS24; YBR1501", "gene_names_refseq": "SDS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38314", "url": "https://www.uniprot.org/uniprotkb/P38314" } ], "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": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314", "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": "PAPLRDEKPQFKLSAVPMTQ", "down_seq": "PSQCLSCVHAQKWQHIPLSQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000418", "url": "https://www.yeastgenome.org/locus/S000000418" }, { "database": "iPTMnet", "id": "P38314", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38314" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr92" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "406", "end_pos": "406" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "451", "end_pos": "451" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38314-1.85.85", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38314-1.90.90", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38314-1.94.94", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38314-1.98.98", "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": "P38325-1.12.12", "start_pos": 12, "end_pos": 12, "uniprot_canonical_ac": "P38325-1", "length": 134, "uniprot_id": "OM14_YEAST", "protein_name": "Mitochondrial outer membrane protein OM14", "refseq_ac": "NP_009789", "refseq_name": "Om14p", "gene_name": "OM14", "gene_names_uniprotkb": "OM14; YBR1527", "gene_names_refseq": "OM14", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38325", "url": "https://www.uniprot.org/uniprotkb/P38325" } ], "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": "P38325", "url": "https://www.uniprot.org/uniprotkb/P38325" }, { "database": "iPTMnet", "id": "P38325", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38325" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "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": "P38325", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38325" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38325", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38325" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38325", "url": "https://www.uniprot.org/uniprotkb/P38325", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38325", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38325", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000434", "url": "https://www.yeastgenome.org/locus/S000000434", "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": "MSATAKHDSNA", "down_seq": "PNSDSEDGHHHNNKKECAIE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38325", "url": "https://www.uniprot.org/uniprotkb/P38325" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "iPTMnet", "id": "P38325", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38325" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000000434", "url": "https://www.yeastgenome.org/locus/S000000434" }, { "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": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38325-1.9.9", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38325-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38325-1.17.17", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38325-1.15.15", "start_pos": 15, "end_pos": 15, "uniprot_canonical_ac": "P38325-1", "length": 134, "uniprot_id": "OM14_YEAST", "protein_name": "Mitochondrial outer membrane protein OM14", "refseq_ac": "NP_009789", "refseq_name": "Om14p", "gene_name": "OM14", "gene_names_uniprotkb": "OM14; YBR1527", "gene_names_refseq": "OM14", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38325", "url": "https://www.uniprot.org/uniprotkb/P38325" } ], "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": "P38325", "url": "https://www.uniprot.org/uniprotkb/P38325" }, { "database": "iPTMnet", "id": "P38325", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38325" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "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": "P38325", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38325" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38325", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38325" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38325", "url": "https://www.uniprot.org/uniprotkb/P38325", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38325", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38325", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000434", "url": "https://www.yeastgenome.org/locus/S000000434", "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": "MSATAKHDSNASPN", "down_seq": "DSEDGHHHNNKKECAIEYLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38325", "url": "https://www.uniprot.org/uniprotkb/P38325" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "iPTMnet", "id": "P38325", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38325" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000000434", "url": "https://www.yeastgenome.org/locus/S000000434" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser15" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38325-1.9.9", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38325-1.12.12", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38325-1.17.17", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38325-1.17.17", "start_pos": 17, "end_pos": 17, "uniprot_canonical_ac": "P38325-1", "length": 134, "uniprot_id": "OM14_YEAST", "protein_name": "Mitochondrial outer membrane protein OM14", "refseq_ac": "NP_009789", "refseq_name": "Om14p", "gene_name": "OM14", "gene_names_uniprotkb": "OM14; YBR1527", "gene_names_refseq": "OM14", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38325", "url": "https://www.uniprot.org/uniprotkb/P38325" } ], "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": "P38325", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38325" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38325", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38325" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38325", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38325", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000434", "url": "https://www.yeastgenome.org/locus/S000000434", "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": "MSATAKHDSNASPNSD", "down_seq": "EDGHHHNNKKECAIEYLKAR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38325", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38325" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000000434", "url": "https://www.yeastgenome.org/locus/S000000434" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser17" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38325-1.9.9", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38325-1.12.12", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38325-1.15.15", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38325-1.9.9", "start_pos": 9, "end_pos": 9, "uniprot_canonical_ac": "P38325-1", "length": 134, "uniprot_id": "OM14_YEAST", "protein_name": "Mitochondrial outer membrane protein OM14", "refseq_ac": "NP_009789", "refseq_name": "Om14p", "gene_name": "OM14", "gene_names_uniprotkb": "OM14; YBR1527", "gene_names_refseq": "OM14", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38325", "url": "https://www.uniprot.org/uniprotkb/P38325" } ], "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": "P38325", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38325" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] } ], "crossref": [ { "id": "P38325", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38325", "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": "MSATAKHD", "down_seq": "NASPNSDSEDGHHHNNKKEC", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38325", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38325" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ], "site_lbl": "Ser9" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38325-1.12.12", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38325-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38325-1.17.17", "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": "P38330-1.610.610", "start_pos": 610, "end_pos": 610, "uniprot_canonical_ac": "P38330-1", "length": 731, "uniprot_id": "RMD9L_YEAST", "protein_name": "RNA-binding protein RMD9-like, mitochondrial", "refseq_ac": "NP_009797", "refseq_name": "uncharacterized protein", "gene_name": "YBR1608", "gene_names_uniprotkb": "YBR1608", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38330", "url": "https://www.uniprot.org/uniprotkb/P38330" } ], "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": "QNDRDSKKSNMNSTQISRTA", "down_seq": "PSPSLTPMDTPAPEHLFNNP", "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": "Thr610", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "610", "end_pos": "610" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "606", "end_pos": "606" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38330-1.606.606", "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": "P38330-1.132.132", "start_pos": 132, "end_pos": 132, "uniprot_canonical_ac": "P38330-1", "length": 731, "uniprot_id": "RMD9L_YEAST", "protein_name": "RNA-binding protein RMD9-like, mitochondrial", "refseq_ac": "NP_009797", "refseq_name": "uncharacterized protein", "gene_name": "YBR1608", "gene_names_uniprotkb": "YBR1608", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38330", "url": "https://www.uniprot.org/uniprotkb/P38330" } ], "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": "P38330", "url": "https://www.uniprot.org/uniprotkb/P38330" }, { "database": "iPTMnet", "id": "P38330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38330" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38330", "url": "https://www.uniprot.org/uniprotkb/P38330", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38330", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000000442", "url": "https://www.yeastgenome.org/locus/S000000442", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RNHHQNNHNHSKYNNSNQGN", "down_seq": "ISPDSPWFHKVCAFEDCVSQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38330", "url": "https://www.uniprot.org/uniprotkb/P38330" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38330" }, { "database": "SGD", "id": "S000000442", "url": "https://www.yeastgenome.org/locus/S000000442" } ], "site_lbl": "Ser132" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "610", "end_pos": "610" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "606", "end_pos": "606" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P38330-1.137.137", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38330-1.137.137", "start_pos": 137, "end_pos": 137, "uniprot_canonical_ac": "P38330-1", "length": 731, "uniprot_id": "RMD9L_YEAST", "protein_name": "RNA-binding protein RMD9-like, mitochondrial", "refseq_ac": "NP_009797", "refseq_name": "uncharacterized protein", "gene_name": "YBR1608", "gene_names_uniprotkb": "YBR1608", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38330", "url": "https://www.uniprot.org/uniprotkb/P38330" } ], "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": "P38330", "url": "https://www.uniprot.org/uniprotkb/P38330" }, { "database": "iPTMnet", "id": "P38330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38330" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38330", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000442", "url": "https://www.yeastgenome.org/locus/S000000442", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NNHNHSKYNNSNQGNSISPD", "down_seq": "PWFHKVCAFEDCVSQTLYMS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38330" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000442", "url": "https://www.yeastgenome.org/locus/S000000442" } ], "site_lbl": "Ser137" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "610", "end_pos": "610" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "606", "end_pos": "606" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38330-1.132.132", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38330-1.527.527", "start_pos": 527, "end_pos": 527, "uniprot_canonical_ac": "P38330-1", "length": 731, "uniprot_id": "RMD9L_YEAST", "protein_name": "RNA-binding protein RMD9-like, mitochondrial", "refseq_ac": "NP_009797", "refseq_name": "uncharacterized protein", "gene_name": "YBR1608", "gene_names_uniprotkb": "YBR1608", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38330", "url": "https://www.uniprot.org/uniprotkb/P38330" } ], "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": "P38330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38330" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P38330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38330", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "KCTVWHDRSILEYIDKSYEA", "down_seq": "HIPKTIVAYRILLKSMGSVD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38330" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Tyr527" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "610", "end_pos": "610" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "606", "end_pos": "606" } ] } ], "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": "P38330-1.606.606", "start_pos": 606, "end_pos": 606, "uniprot_canonical_ac": "P38330-1", "length": 731, "uniprot_id": "RMD9L_YEAST", "protein_name": "RNA-binding protein RMD9-like, mitochondrial", "refseq_ac": "NP_009797", "refseq_name": "uncharacterized protein", "gene_name": "YBR1608", "gene_names_uniprotkb": "YBR1608", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38330", "url": "https://www.uniprot.org/uniprotkb/P38330" } ], "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": "P38330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38330" } ], "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": "P38330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38330" } ], "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": "P38330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38330" } ], "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": "P38330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38330" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000442", "url": "https://www.yeastgenome.org/locus/S000000442", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38330", "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": "VTWTQNDRDSKKSNMNSTQI", "down_seq": "RTATPSPSLTPMDTPAPEHL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000442", "url": "https://www.yeastgenome.org/locus/S000000442" }, { "database": "iPTMnet", "id": "P38330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38330" }, { "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": "Ser606" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "610", "end_pos": "610" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "606", "end_pos": "606" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P38330-1.610.610", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38335-1.212.212", "start_pos": 212, "end_pos": 212, "uniprot_canonical_ac": "P38335-1", "length": 694, "uniprot_id": "MTC4_YEAST", "protein_name": "Maintenance of telomere capping protein 4", "refseq_ac": "NP_009814", "refseq_name": "Mtc4p", "gene_name": "MTC4", "gene_names_uniprotkb": "MTC4; YBR1723", "gene_names_refseq": "MTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335", "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": "RTSHWEELVDPQGKLWFQSY", "down_seq": "PSNESSGSSSSRRHHGHHIH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser212" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38335-1.214.214", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38335-1.223.223", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38335-1.214.214", "start_pos": 214, "end_pos": 214, "uniprot_canonical_ac": "P38335-1", "length": 694, "uniprot_id": "MTC4_YEAST", "protein_name": "Maintenance of telomere capping protein 4", "refseq_ac": "NP_009814", "refseq_name": "Mtc4p", "gene_name": "MTC4", "gene_names_uniprotkb": "MTC4; YBR1723", "gene_names_refseq": "MTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335", "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": "SHWEELVDPQGKLWFQSYSP", "down_seq": "NESSGSSSSRRHHGHHIHPR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser214" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38335-1.212.212", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38335-1.223.223", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38335-1.223.223", "start_pos": 223, "end_pos": 223, "uniprot_canonical_ac": "P38335-1", "length": 694, "uniprot_id": "MTC4_YEAST", "protein_name": "Maintenance of telomere capping protein 4", "refseq_ac": "NP_009814", "refseq_name": "Mtc4p", "gene_name": "MTC4", "gene_names_uniprotkb": "MTC4; YBR1723", "gene_names_refseq": "MTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335", "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": "QGKLWFQSYSPSNESSGSSS", "down_seq": "RRHHGHHIHPRRHLQHHSRV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser223" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38335-1.212.212", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38335-1.214.214", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38335-1.245.245", "start_pos": 245, "end_pos": 245, "uniprot_canonical_ac": "P38335-1", "length": 694, "uniprot_id": "MTC4_YEAST", "protein_name": "Maintenance of telomere capping protein 4", "refseq_ac": "NP_009814", "refseq_name": "Mtc4p", "gene_name": "MTC4", "gene_names_uniprotkb": "MTC4; YBR1723", "gene_names_refseq": "MTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335", "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": "RHHGHHIHPRRHLQHHSRVR", "down_seq": "ANSVHSNTQSLTPKRVMTNE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr245" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38335-1.248.248", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38335-1.251.251", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38335-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38335-1.255.255", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38335-1.257.257", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38335-1.263.263", "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": "P38335-1.248.248", "start_pos": 248, "end_pos": 248, "uniprot_canonical_ac": "P38335-1", "length": 694, "uniprot_id": "MTC4_YEAST", "protein_name": "Maintenance of telomere capping protein 4", "refseq_ac": "NP_009814", "refseq_name": "Mtc4p", "gene_name": "MTC4", "gene_names_uniprotkb": "MTC4; YBR1723", "gene_names_refseq": "MTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335", "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": "GHHIHPRRHLQHHSRVRTAN", "down_seq": "VHSNTQSLTPKRVMTNEEDN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser248" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38335-1.245.245", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38335-1.251.251", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38335-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38335-1.255.255", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38335-1.257.257", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38335-1.263.263", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38335-1.251.251", "start_pos": 251, "end_pos": 251, "uniprot_canonical_ac": "P38335-1", "length": 694, "uniprot_id": "MTC4_YEAST", "protein_name": "Maintenance of telomere capping protein 4", "refseq_ac": "NP_009814", "refseq_name": "Mtc4p", "gene_name": "MTC4", "gene_names_uniprotkb": "MTC4; YBR1723", "gene_names_refseq": "MTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335", "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": "IHPRRHLQHHSRVRTANSVH", "down_seq": "NTQSLTPKRVMTNEEDNNNH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser251" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38335-1.245.245", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38335-1.248.248", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38335-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38335-1.255.255", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38335-1.257.257", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38335-1.263.263", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38335-1.253.253", "start_pos": 253, "end_pos": 253, "uniprot_canonical_ac": "P38335-1", "length": 694, "uniprot_id": "MTC4_YEAST", "protein_name": "Maintenance of telomere capping protein 4", "refseq_ac": "NP_009814", "refseq_name": "Mtc4p", "gene_name": "MTC4", "gene_names_uniprotkb": "MTC4; YBR1723", "gene_names_refseq": "MTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335", "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": "PRRHLQHHSRVRTANSVHSN", "down_seq": "QSLTPKRVMTNEEDNNNHNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr253" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38335-1.245.245", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38335-1.248.248", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38335-1.251.251", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38335-1.255.255", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38335-1.257.257", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38335-1.263.263", "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": "P38335-1.255.255", "start_pos": 255, "end_pos": 255, "uniprot_canonical_ac": "P38335-1", "length": 694, "uniprot_id": "MTC4_YEAST", "protein_name": "Maintenance of telomere capping protein 4", "refseq_ac": "NP_009814", "refseq_name": "Mtc4p", "gene_name": "MTC4", "gene_names_uniprotkb": "MTC4; YBR1723", "gene_names_refseq": "MTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335", "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": "RHLQHHSRVRTANSVHSNTQ", "down_seq": "LTPKRVMTNEEDNNNHNNNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser255" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38335-1.245.245", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38335-1.248.248", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38335-1.251.251", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38335-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38335-1.257.257", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38335-1.263.263", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38335-1.257.257", "start_pos": 257, "end_pos": 257, "uniprot_canonical_ac": "P38335-1", "length": 694, "uniprot_id": "MTC4_YEAST", "protein_name": "Maintenance of telomere capping protein 4", "refseq_ac": "NP_009814", "refseq_name": "Mtc4p", "gene_name": "MTC4", "gene_names_uniprotkb": "MTC4; YBR1723", "gene_names_refseq": "MTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335", "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": "LQHHSRVRTANSVHSNTQSL", "down_seq": "PKRVMTNEEDNNNHNNNNMI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr257" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38335-1.245.245", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38335-1.248.248", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38335-1.251.251", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38335-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38335-1.255.255", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38335-1.263.263", "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": "P38335-1.263.263", "start_pos": 263, "end_pos": 263, "uniprot_canonical_ac": "P38335-1", "length": 694, "uniprot_id": "MTC4_YEAST", "protein_name": "Maintenance of telomere capping protein 4", "refseq_ac": "NP_009814", "refseq_name": "Mtc4p", "gene_name": "MTC4", "gene_names_uniprotkb": "MTC4; YBR1723", "gene_names_refseq": "MTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" } ], "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": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335", "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": "T", "start_aa": "T", "up_seq": "VRTANSVHSNTQSLTPKRVM", "down_seq": "NEEDNNNHNNNNMITKIATT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" }, { "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": "Thr263" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38335-1.245.245", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38335-1.248.248", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38335-1.251.251", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38335-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38335-1.255.255", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38335-1.257.257", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38335-1.282.282", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38335-1.283.283", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38335-1.282.282", "start_pos": 282, "end_pos": 282, "uniprot_canonical_ac": "P38335-1", "length": 694, "uniprot_id": "MTC4_YEAST", "protein_name": "Maintenance of telomere capping protein 4", "refseq_ac": "NP_009814", "refseq_name": "Mtc4p", "gene_name": "MTC4", "gene_names_uniprotkb": "MTC4; YBR1723", "gene_names_refseq": "MTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335", "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": "MTNEEDNNNHNNNNMITKIA", "down_seq": "TPEAQISRNKKSDLNLSHIH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr282" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38335-1.263.263", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38335-1.283.283", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38335-1.283.283", "start_pos": 283, "end_pos": 283, "uniprot_canonical_ac": "P38335-1", "length": 694, "uniprot_id": "MTC4_YEAST", "protein_name": "Maintenance of telomere capping protein 4", "refseq_ac": "NP_009814", "refseq_name": "Mtc4p", "gene_name": "MTC4", "gene_names_uniprotkb": "MTC4; YBR1723", "gene_names_refseq": "MTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459", "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": "T", "start_aa": "T", "up_seq": "TNEEDNNNHNNNNMITKIAT", "down_seq": "PEAQISRNKKSDLNLSHIHL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "SGD", "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459" }, { "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": "Thr283" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38335-1.263.263", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38335-1.282.282", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38335-1.356.356", "start_pos": 356, "end_pos": 356, "uniprot_canonical_ac": "P38335-1", "length": 694, "uniprot_id": "MTC4_YEAST", "protein_name": "Maintenance of telomere capping protein 4", "refseq_ac": "NP_009814", "refseq_name": "Mtc4p", "gene_name": "MTC4", "gene_names_uniprotkb": "MTC4; YBR1723", "gene_names_refseq": "MTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459", "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": "GSSNTSGSGGKRNSKHYRSK", "down_seq": "AGPPENEKSRMNGLEKIISK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser356" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "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": "P38335-1.401.401", "start_pos": 401, "end_pos": 401, "uniprot_canonical_ac": "P38335-1", "length": 694, "uniprot_id": "MTC4_YEAST", "protein_name": "Maintenance of telomere capping protein 4", "refseq_ac": "NP_009814", "refseq_name": "Mtc4p", "gene_name": "MTC4", "gene_names_uniprotkb": "MTC4; YBR1723", "gene_names_refseq": "MTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335", "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": "WSRSPKKNTPGLEKQVLLNP", "down_seq": "ISNGGTSRRSSNNGESISTN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr401" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38335-1.403.403", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38335-1.407.407", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38335-1.408.408", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38335-1.412.412", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38335-1.403.403", "start_pos": 403, "end_pos": 403, "uniprot_canonical_ac": "P38335-1", "length": 694, "uniprot_id": "MTC4_YEAST", "protein_name": "Maintenance of telomere capping protein 4", "refseq_ac": "NP_009814", "refseq_name": "Mtc4p", "gene_name": "MTC4", "gene_names_uniprotkb": "MTC4; YBR1723", "gene_names_refseq": "MTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335", "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": "RSPKKNTPGLEKQVLLNPTI", "down_seq": "NGGTSRRSSNNGESISTNSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" }, { "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": "Ser403" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38335-1.401.401", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38335-1.407.407", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38335-1.408.408", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38335-1.412.412", "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": "P38335-1.407.407", "start_pos": 407, "end_pos": 407, "uniprot_canonical_ac": "P38335-1", "length": 694, "uniprot_id": "MTC4_YEAST", "protein_name": "Maintenance of telomere capping protein 4", "refseq_ac": "NP_009814", "refseq_name": "Mtc4p", "gene_name": "MTC4", "gene_names_uniprotkb": "MTC4; YBR1723", "gene_names_refseq": "MTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335", "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": "KNTPGLEKQVLLNPTISNGG", "down_seq": "SRRSSNNGESISTNSSKSSM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr407" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38335-1.401.401", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38335-1.403.403", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38335-1.408.408", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38335-1.412.412", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38335-1.408.408", "start_pos": 408, "end_pos": 408, "uniprot_canonical_ac": "P38335-1", "length": 694, "uniprot_id": "MTC4_YEAST", "protein_name": "Maintenance of telomere capping protein 4", "refseq_ac": "NP_009814", "refseq_name": "Mtc4p", "gene_name": "MTC4", "gene_names_uniprotkb": "MTC4; YBR1723", "gene_names_refseq": "MTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335", "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": "NTPGLEKQVLLNPTISNGGT", "down_seq": "RRSSNNGESISTNSSKSSMG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser408" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38335-1.401.401", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38335-1.403.403", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38335-1.407.407", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38335-1.412.412", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38335-1.412.412", "start_pos": 412, "end_pos": 412, "uniprot_canonical_ac": "P38335-1", "length": 694, "uniprot_id": "MTC4_YEAST", "protein_name": "Maintenance of telomere capping protein 4", "refseq_ac": "NP_009814", "refseq_name": "Mtc4p", "gene_name": "MTC4", "gene_names_uniprotkb": "MTC4; YBR1723", "gene_names_refseq": "MTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335", "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": "LEKQVLLNPTISNGGTSRRS", "down_seq": "NNGESISTNSSKSSMGITFG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser412" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38335-1.401.401", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38335-1.403.403", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38335-1.407.407", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38335-1.408.408", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38335-1.481.481", "start_pos": 481, "end_pos": 481, "uniprot_canonical_ac": "P38335-1", "length": 694, "uniprot_id": "MTC4_YEAST", "protein_name": "Maintenance of telomere capping protein 4", "refseq_ac": "NP_009814", "refseq_name": "Mtc4p", "gene_name": "MTC4", "gene_names_uniprotkb": "MTC4; YBR1723", "gene_names_refseq": "MTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" } ], "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": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335", "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459", "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": "TLRGKTSNRSLRAEGEQALE", "down_seq": "DKELPNGAGSIYEGAPREKT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" }, { "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459" }, { "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": "Ser481" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "upstream", "id": "P38335-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38335-1.493.493", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38335-1.491.491", "start_pos": 491, "end_pos": 491, "uniprot_canonical_ac": "P38335-1", "length": 694, "uniprot_id": "MTC4_YEAST", "protein_name": "Maintenance of telomere capping protein 4", "refseq_ac": "NP_009814", "refseq_name": "Mtc4p", "gene_name": "MTC4", "gene_names_uniprotkb": "MTC4; YBR1723", "gene_names_refseq": "MTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" } ], "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": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459", "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": "LRAEGEQALESDKELPNGAG", "down_seq": "IYEGAPREKTTSQGSEPVGL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" }, { "database": "SGD", "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459" }, { "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": "Ser491" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38335-1.481.481", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38335-1.493.493", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38335-1.493.493", "start_pos": 493, "end_pos": 493, "uniprot_canonical_ac": "P38335-1", "length": 694, "uniprot_id": "MTC4_YEAST", "protein_name": "Maintenance of telomere capping protein 4", "refseq_ac": "NP_009814", "refseq_name": "Mtc4p", "gene_name": "MTC4", "gene_names_uniprotkb": "MTC4; YBR1723", "gene_names_refseq": "MTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" } ], "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": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459", "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": "AEGEQALESDKELPNGAGSI", "down_seq": "EGAPREKTTSQGSEPVGLVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "Phosphotyrosine", "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" }, { "database": "SGD", "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr493" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38335-1.481.481", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38335-1.491.491", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38335-1.573.573", "start_pos": 573, "end_pos": 573, "uniprot_canonical_ac": "P38335-1", "length": 694, "uniprot_id": "MTC4_YEAST", "protein_name": "Maintenance of telomere capping protein 4", "refseq_ac": "NP_009814", "refseq_name": "Mtc4p", "gene_name": "MTC4", "gene_names_uniprotkb": "MTC4; YBR1723", "gene_names_refseq": "MTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335", "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": "EIARRNEIEITQDADTNIRK", "down_seq": "ADALTQYDNELNKVLKLGND", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr573" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "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": "P38335-1.603.603", "start_pos": 603, "end_pos": 603, "uniprot_canonical_ac": "P38335-1", "length": 694, "uniprot_id": "MTC4_YEAST", "protein_name": "Maintenance of telomere capping protein 4", "refseq_ac": "NP_009814", "refseq_name": "Mtc4p", "gene_name": "MTC4", "gene_names_uniprotkb": "MTC4; YBR1723", "gene_names_refseq": "MTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335", "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": "ELNKVLKLGNDWTSKLLNDY", "down_seq": "IRVETLISSSDRILSDINTT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser603" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "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": "P38335-1.83.83", "start_pos": 83, "end_pos": 83, "uniprot_canonical_ac": "P38335-1", "length": 694, "uniprot_id": "MTC4_YEAST", "protein_name": "Maintenance of telomere capping protein 4", "refseq_ac": "NP_009814", "refseq_name": "Mtc4p", "gene_name": "MTC4", "gene_names_uniprotkb": "MTC4; YBR1723", "gene_names_refseq": "MTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335", "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": "PISAKTSELGTEYLKNQQEN", "down_seq": "VSPILPISRSTRIKADRVRI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser83" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38335-1.85.85", "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": "P38335-1.85.85", "start_pos": 85, "end_pos": 85, "uniprot_canonical_ac": "P38335-1", "length": 694, "uniprot_id": "MTC4_YEAST", "protein_name": "Maintenance of telomere capping protein 4", "refseq_ac": "NP_009814", "refseq_name": "Mtc4p", "gene_name": "MTC4", "gene_names_uniprotkb": "MTC4; YBR1723", "gene_names_refseq": "MTC4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" } ], "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": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "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": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459", "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": "SAKTSELGTEYLKNQQENSV", "down_seq": "PILPISRSTRIKADRVRIYL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38335", "url": "https://www.uniprot.org/uniprotkb/P38335" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38335", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38335" }, { "database": "SGD", "id": "S000000459", "url": "https://www.yeastgenome.org/locus/S000000459" }, { "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": "Ser85" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "212", "end_pos": "212" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "401", "end_pos": "401" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38335-1.83.83", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38343-1.133.133", "start_pos": 133, "end_pos": 133, "uniprot_canonical_ac": "P38343-1", "length": 150, "uniprot_id": "SLM6_YEAST", "protein_name": "Protein SLM6", "refseq_ac": "NP_001381962", "refseq_name": "Slm6p", "gene_name": "SLM6", "gene_names_uniprotkb": "SLM6; YBR1735", "gene_names_refseq": "SLM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38343", "url": "https://www.uniprot.org/uniprotkb/P38343" } ], "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": "P38343", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38343" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000470", "url": "https://www.yeastgenome.org/locus/S000000470", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38343", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38343", "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": "TGFSFSADLLVLAAAADTLE", "down_seq": "NVSNDIGGNCATRLFKL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000470", "url": "https://www.yeastgenome.org/locus/S000000470" }, { "database": "iPTMnet", "id": "P38343", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38343" }, { "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": "136", "end_pos": "136" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38343-1.136.136", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38343-1.136.136", "start_pos": 136, "end_pos": 136, "uniprot_canonical_ac": "P38343-1", "length": 150, "uniprot_id": "SLM6_YEAST", "protein_name": "Protein SLM6", "refseq_ac": "NP_001381962", "refseq_name": "Slm6p", "gene_name": "SLM6", "gene_names_uniprotkb": "SLM6; YBR1735", "gene_names_refseq": "SLM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38343", "url": "https://www.uniprot.org/uniprotkb/P38343" } ], "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": "P38343", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38343" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000470", "url": "https://www.yeastgenome.org/locus/S000000470", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38343", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38343", "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": "SFSADLLVLAAAADTLESNV", "down_seq": "NDIGGNCATRLFKL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000470", "url": "https://www.yeastgenome.org/locus/S000000470" }, { "database": "iPTMnet", "id": "P38343", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38343" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser136" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38343-1.133.133", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38343-1.6.6", "start_pos": 6, "end_pos": 6, "uniprot_canonical_ac": "P38343-1", "length": 150, "uniprot_id": "SLM6_YEAST", "protein_name": "Protein SLM6", "refseq_ac": "NP_001381962", "refseq_name": "Slm6p", "gene_name": "SLM6", "gene_names_uniprotkb": "SLM6; YBR1735", "gene_names_refseq": "SLM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38343", "url": "https://www.uniprot.org/uniprotkb/P38343" } ], "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": "iPTMnet", "id": "P38343", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38343" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "S000000470", "url": "https://www.yeastgenome.org/locus/S000000470", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38343", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38343", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MCSRF", "down_seq": "STSLKCLLCSQNRHCSSGIS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000470", "url": "https://www.yeastgenome.org/locus/S000000470" }, { "database": "iPTMnet", "id": "P38343", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38343" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ], "site_lbl": "Ser6" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38343-1.9.9", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38343-1.9.9", "start_pos": 9, "end_pos": 9, "uniprot_canonical_ac": "P38343-1", "length": 150, "uniprot_id": "SLM6_YEAST", "protein_name": "Protein SLM6", "refseq_ac": "NP_001381962", "refseq_name": "Slm6p", "gene_name": "SLM6", "gene_names_uniprotkb": "SLM6; YBR1735", "gene_names_refseq": "SLM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38343", "url": "https://www.uniprot.org/uniprotkb/P38343" } ], "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": "iPTMnet", "id": "P38343", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38343" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "S000000470", "url": "https://www.yeastgenome.org/locus/S000000470", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38343", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38343", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MCSRFSST", "down_seq": "LKCLLCSQNRHCSSGISTLL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000470", "url": "https://www.yeastgenome.org/locus/S000000470" }, { "database": "iPTMnet", "id": "P38343", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38343" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ], "site_lbl": "Ser9" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38343-1.6.6", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38358-1.420.420", "start_pos": 420, "end_pos": 420, "uniprot_canonical_ac": "P38358-1", "length": 474, "uniprot_id": "VBA2_YEAST", "protein_name": "Vacuolar basic amino acid transporter 2", "refseq_ac": "NP_009852", "refseq_name": "Vba2p", "gene_name": "VBA2", "gene_names_uniprotkb": "VBA2; YBR2109", "gene_names_refseq": "VBA2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38358", "url": "https://www.uniprot.org/uniprotkb/P38358" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38358", "url": "https://www.uniprot.org/uniprotkb/P38358", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "NLKGLLDENKIKKLIVQLSA", "down_seq": "SSYIGSLHGEVKNTVIKSFD", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn420", "evidence": [ { "id": "P38358", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38358#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "420", "end_pos": "420" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38374-1.5.5", "start_pos": 5, "end_pos": 5, "uniprot_canonical_ac": "P38374-1", "length": 65, "uniprot_id": "YSY6_YEAST", "protein_name": "Protein YSY6", "refseq_ac": "NP_009721", "refseq_name": "Ysy6p", "gene_name": "YSY6", "gene_names_uniprotkb": "YSY6; YBR162BW", "gene_names_refseq": "YSY6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38374", "url": "https://www.uniprot.org/uniprotkb/P38374" } ], "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": "P38374", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38374" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000002158", "url": "https://www.yeastgenome.org/locus/S000002158", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38374", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38374", "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": "MAVQ", "down_seq": "PRQRLANAKFNKNNEKYRKY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002158", "url": "https://www.yeastgenome.org/locus/S000002158" }, { "database": "iPTMnet", "id": "P38374", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38374" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Thr5" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "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": "P38693-1.162.162", "start_pos": 162, "end_pos": 162, "uniprot_canonical_ac": "P38693-1", "length": 467, "uniprot_id": "PPAC_YEAST", "protein_name": "Acid phosphatase PHO12", "refseq_ac": "NP_012087", "refseq_name": "acid phosphatase PHO12", "gene_name": "PHO12", "gene_names_uniprotkb": "PHO12", "gene_names_refseq": "PHO10; PHO12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38693", "url": "https://www.uniprot.org/uniprotkb/P38693" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38693", "url": "https://www.uniprot.org/uniprotkb/P38693", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "EMNAKRHARDFLAQYGYMVE", "down_seq": "QTSFAVFTSNSNRCHDTAQY", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn162", "evidence": [ { "id": "P38693", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38693#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "162", "end_pos": "162" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "97", "end_pos": "97" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38693-1.192.192", "start_pos": 192, "end_pos": 192, "uniprot_canonical_ac": "P38693-1", "length": 467, "uniprot_id": "PPAC_YEAST", "protein_name": "Acid phosphatase PHO12", "refseq_ac": "NP_012087", "refseq_name": "acid phosphatase PHO12", "gene_name": "PHO12", "gene_names_uniprotkb": "PHO12", "gene_names_refseq": "PHO10; PHO12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38693", "url": "https://www.uniprot.org/uniprotkb/P38693" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38693", "url": "https://www.uniprot.org/uniprotkb/P38693", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "NSNRCHDTAQYFIDGLGDKF", "down_seq": "ISLQTISEAESAGANTLSAH", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn192", "evidence": [ { "id": "P38693", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38693#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "162", "end_pos": "162" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "97", "end_pos": "97" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38693-1.250.250", "start_pos": 250, "end_pos": 250, "uniprot_canonical_ac": "P38693-1", "length": 467, "uniprot_id": "PPAC_YEAST", "protein_name": "Acid phosphatase PHO12", "refseq_ac": "NP_012087", "refseq_name": "acid phosphatase PHO12", "gene_name": "PHO12", "gene_names_uniprotkb": "PHO12", "gene_names_refseq": "PHO10; PHO12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38693", "url": "https://www.uniprot.org/uniprotkb/P38693" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38693", "url": "https://www.uniprot.org/uniprotkb/P38693", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "YDTKYLSGIAKRLNKENKGL", "down_seq": "LTSSDANTFFAWCAYEINAR", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn250", "evidence": [ { "id": "P38693", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38693#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "162", "end_pos": "162" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "97", "end_pos": "97" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38693-1.315.315", "start_pos": 315, "end_pos": 315, "uniprot_canonical_ac": "P38693-1", "length": 467, "uniprot_id": "PPAC_YEAST", "protein_name": "Acid phosphatase PHO12", "refseq_ac": "NP_012087", "refseq_name": "acid phosphatase PHO12", "gene_name": "PHO12", "gene_names_uniprotkb": "PHO12", "gene_names_refseq": "PHO10; PHO12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38693", "url": "https://www.uniprot.org/uniprotkb/P38693" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38693", "url": "https://www.uniprot.org/uniprotkb/P38693", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "TYYQTGPGYDVVRSVGANLF", "down_seq": "ASVKLLKESEVQDQKVWLSF", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn315", "evidence": [ { "id": "P38693", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38693#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "162", "end_pos": "162" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "97", "end_pos": "97" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38693-1.356.356", "start_pos": 356, "end_pos": 356, "uniprot_canonical_ac": "P38693-1", "length": 467, "uniprot_id": "PPAC_YEAST", "protein_name": "Acid phosphatase PHO12", "refseq_ac": "NP_012087", "refseq_name": "acid phosphatase PHO12", "gene_name": "PHO12", "gene_names_uniprotkb": "PHO12", "gene_names_refseq": "PHO10; PHO12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38693", "url": "https://www.uniprot.org/uniprotkb/P38693" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38693", "url": "https://www.uniprot.org/uniprotkb/P38693", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "THDTDILNYLTTIGIIDDQN", "down_seq": "LTAEHVPFMENTFHRSWYVP", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn356", "evidence": [ { "id": "P38693", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38693#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "162", "end_pos": "162" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "97", "end_pos": "97" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38693-1.390.390", "start_pos": 390, "end_pos": 390, "uniprot_canonical_ac": "P38693-1", "length": 467, "uniprot_id": "PPAC_YEAST", "protein_name": "Acid phosphatase PHO12", "refseq_ac": "NP_012087", "refseq_name": "acid phosphatase PHO12", "gene_name": "PHO12", "gene_names_uniprotkb": "PHO12", "gene_names_refseq": "PHO10; PHO12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38693", "url": "https://www.uniprot.org/uniprotkb/P38693" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38693", "url": "https://www.uniprot.org/uniprotkb/P38693", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "HRSWYVPQGARVYTEKFQCS", "down_seq": "DTYVRYVINDAVVPIETCST", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn390", "evidence": [ { "id": "P38693", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38693#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "162", "end_pos": "162" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "97", "end_pos": "97" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38693-1.439.439", "start_pos": 439, "end_pos": 439, "uniprot_canonical_ac": "P38693-1", "length": 467, "uniprot_id": "PPAC_YEAST", "protein_name": "Acid phosphatase PHO12", "refseq_ac": "NP_012087", "refseq_name": "acid phosphatase PHO12", "gene_name": "PHO12", "gene_names_uniprotkb": "PHO12", "gene_names_refseq": "PHO10; PHO12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38693", "url": "https://www.uniprot.org/uniprotkb/P38693" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38693", "url": "https://www.uniprot.org/uniprotkb/P38693", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "NDFYGYAEKRVAGTDFLKVC", "down_seq": "VSSVSNSTELTFFWDWNTKH", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn439", "evidence": [ { "id": "P38693", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38693#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "162", "end_pos": "162" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P38693-1.445.445", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38693-1.445.445", "start_pos": 445, "end_pos": 445, "uniprot_canonical_ac": "P38693-1", "length": 467, "uniprot_id": "PPAC_YEAST", "protein_name": "Acid phosphatase PHO12", "refseq_ac": "NP_012087", "refseq_name": "acid phosphatase PHO12", "gene_name": "PHO12", "gene_names_uniprotkb": "PHO12", "gene_names_refseq": "PHO10; PHO12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38693", "url": "https://www.uniprot.org/uniprotkb/P38693" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38693", "url": "https://www.uniprot.org/uniprotkb/P38693", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "AEKRVAGTDFLKVCNVSSVS", "down_seq": "STELTFFWDWNTKHYNDTLL", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn445", "evidence": [ { "id": "P38693", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38693#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "162", "end_pos": "162" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38693-1.439.439", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38693-1.461.461", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38693-1.461.461", "start_pos": 461, "end_pos": 461, "uniprot_canonical_ac": "P38693-1", "length": 467, "uniprot_id": "PPAC_YEAST", "protein_name": "Acid phosphatase PHO12", "refseq_ac": "NP_012087", "refseq_name": "acid phosphatase PHO12", "gene_name": "PHO12", "gene_names_uniprotkb": "PHO12", "gene_names_refseq": "PHO10; PHO12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38693", "url": "https://www.uniprot.org/uniprotkb/P38693" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38693", "url": "https://www.uniprot.org/uniprotkb/P38693", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "SSVSNSTELTFFWDWNTKHY", "down_seq": "DTLLKQ", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn461", "evidence": [ { "id": "P38693", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38693#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "162", "end_pos": "162" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38693-1.445.445", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38693-1.97.97", "start_pos": 97, "end_pos": 97, "uniprot_canonical_ac": "P38693-1", "length": 467, "uniprot_id": "PPAC_YEAST", "protein_name": "Acid phosphatase PHO12", "refseq_ac": "NP_012087", "refseq_name": "acid phosphatase PHO12", "gene_name": "PHO12", "gene_names_uniprotkb": "PHO12", "gene_names_refseq": "PHO10; PHO12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38693", "url": "https://www.uniprot.org/uniprotkb/P38693" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38693", "url": "https://www.uniprot.org/uniprotkb/P38693", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "ERYPTVSKAKSIMTTWYKLS", "down_seq": "YTGQFSGALSFLNDDYEFFI", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn97", "evidence": [ { "id": "P38693", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38693#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "162", "end_pos": "162" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "97", "end_pos": "97" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38694-1.15.15", "start_pos": 15, "end_pos": 15, "uniprot_canonical_ac": "P38694-1", "length": 644, "uniprot_id": "MSC7_YEAST", "protein_name": "Putative aldehyde dehydrogenase-like protein YHR039C", "refseq_ac": "NP_011904", "refseq_name": "meiotic recombination directing protein", "gene_name": "MSC7", "gene_names_uniprotkb": "MSC7", "gene_names_refseq": "MSC7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38694", "url": "https://www.uniprot.org/uniprotkb/P38694" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38694", "url": "https://www.uniprot.org/uniprotkb/P38694", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "MSKVYLNSDMINHL", "down_seq": "STVQAYFNLWLEKQNAIMRS", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn15", "evidence": [ { "id": "P38694", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38694#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "627", "end_pos": "627" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38694-1.565.565", "start_pos": 565, "end_pos": 565, "uniprot_canonical_ac": "P38694-1", "length": 644, "uniprot_id": "MSC7_YEAST", "protein_name": "Putative aldehyde dehydrogenase-like protein YHR039C", "refseq_ac": "NP_011904", "refseq_name": "meiotic recombination directing protein", "gene_name": "MSC7", "gene_names_uniprotkb": "MSC7", "gene_names_refseq": "MSC7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38694", "url": "https://www.uniprot.org/uniprotkb/P38694" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38694", "url": "https://www.uniprot.org/uniprotkb/P38694", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "NVAINDFATFYVCQLPFGGI", "down_seq": "GSGYGKFGGEEGLLGLCNAK", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn565", "evidence": [ { "id": "P38694", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38694#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "627", "end_pos": "627" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38694-1.627.627", "start_pos": 627, "end_pos": 627, "uniprot_canonical_ac": "P38694-1", "length": 644, "uniprot_id": "MSC7_YEAST", "protein_name": "Putative aldehyde dehydrogenase-like protein YHR039C", "refseq_ac": "NP_011904", "refseq_name": "meiotic recombination directing protein", "gene_name": "MSC7", "gene_names_uniprotkb": "MSC7", "gene_names_refseq": "MSC7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38694", "url": "https://www.uniprot.org/uniprotkb/P38694" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38694", "url": "https://www.uniprot.org/uniprotkb/P38694", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "IRNNAKAWNFVKSFIVGAYT", "down_seq": "STWQRIKSLFSLAKEAS", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn627", "evidence": [ { "id": "P38694", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38694#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "627", "end_pos": "627" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38707-1.101.101", "start_pos": 101, "end_pos": 101, "uniprot_canonical_ac": "P38707-1", "length": 554, "uniprot_id": "SYNC_YEAST", "protein_name": "Asparagine--tRNA ligase, cytoplasmic", "refseq_ac": "NP_011883", "refseq_name": "asparagine--tRNA ligase DED81", "gene_name": "DED81", "gene_names_uniprotkb": "DED81", "gene_names_refseq": "DED81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38707", "url": "https://www.uniprot.org/uniprotkb/P38707" } ], "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": "P38707", "url": "https://www.uniprot.org/uniprotkb/P38707" }, { "database": "iPTMnet", "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "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": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061", "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": "QKEQELKKQQKEAENAAKQL", "down_seq": "ALNITIKEDESLPAAIKTRI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser101" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "62", "end_pos": "62" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "upstream", "id": "P38707-1.112.112", "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": "P38707-1.10.10", "start_pos": 10, "end_pos": 10, "uniprot_canonical_ac": "P38707-1", "length": 554, "uniprot_id": "SYNC_YEAST", "protein_name": "Asparagine--tRNA ligase, cytoplasmic", "refseq_ac": "NP_011883", "refseq_name": "asparagine--tRNA ligase DED81", "gene_name": "DED81", "gene_names_uniprotkb": "DED81", "gene_names_refseq": "DED81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38707", "url": "https://www.uniprot.org/uniprotkb/P38707" } ], "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": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707", "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": "MSSLYIKEA", "down_seq": "GVDELTTAGSQDHPFKTPAY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061" }, { "database": "iPTMnet", "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr10" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "62", "end_pos": "62" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P38707-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38707-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38707-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38707-1.27.27", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38707-1.112.112", "start_pos": 112, "end_pos": 112, "uniprot_canonical_ac": "P38707-1", "length": 554, "uniprot_id": "SYNC_YEAST", "protein_name": "Asparagine--tRNA ligase, cytoplasmic", "refseq_ac": "NP_011883", "refseq_name": "asparagine--tRNA ligase DED81", "gene_name": "DED81", "gene_names_uniprotkb": "DED81", "gene_names_refseq": "DED81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38707", "url": "https://www.uniprot.org/uniprotkb/P38707" } ], "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": "P38707", "url": "https://www.uniprot.org/uniprotkb/P38707" }, { "database": "iPTMnet", "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "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": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707", "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": "EAENAAKQLSALNITIKEDE", "down_seq": "LPAAIKTRIYDSYSKVGQRV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061" }, { "database": "iPTMnet", "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser112" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "62", "end_pos": "62" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38707-1.101.101", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38707-1.126.126", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38707-1.126.126", "start_pos": 126, "end_pos": 126, "uniprot_canonical_ac": "P38707-1", "length": 554, "uniprot_id": "SYNC_YEAST", "protein_name": "Asparagine--tRNA ligase, cytoplasmic", "refseq_ac": "NP_011883", "refseq_name": "asparagine--tRNA ligase DED81", "gene_name": "DED81", "gene_names_uniprotkb": "DED81", "gene_names_refseq": "DED81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38707", "url": "https://www.uniprot.org/uniprotkb/P38707" } ], "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": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707", "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": "TIKEDESLPAAIKTRIYDSY", "down_seq": "KVGQRVKVSGWIHRLRSNKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061" }, { "database": "iPTMnet", "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser126" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "62", "end_pos": "62" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38707-1.112.112", "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": "P38707-1.16.16", "start_pos": 16, "end_pos": 16, "uniprot_canonical_ac": "P38707-1", "length": 554, "uniprot_id": "SYNC_YEAST", "protein_name": "Asparagine--tRNA ligase, cytoplasmic", "refseq_ac": "NP_011883", "refseq_name": "asparagine--tRNA ligase DED81", "gene_name": "DED81", "gene_names_uniprotkb": "DED81", "gene_names_refseq": "DED81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38707", "url": "https://www.uniprot.org/uniprotkb/P38707" } ], "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": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707", "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": "MSSLYIKEATGVDEL", "down_seq": "TAGSQDHPFKTPAYALFASQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061" }, { "database": "iPTMnet", "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr16" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "62", "end_pos": "62" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38707-1.10.10", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38707-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38707-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38707-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38707-1.35.35", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38707-1.17.17", "start_pos": 17, "end_pos": 17, "uniprot_canonical_ac": "P38707-1", "length": 554, "uniprot_id": "SYNC_YEAST", "protein_name": "Asparagine--tRNA ligase, cytoplasmic", "refseq_ac": "NP_011883", "refseq_name": "asparagine--tRNA ligase DED81", "gene_name": "DED81", "gene_names_uniprotkb": "DED81", "gene_names_refseq": "DED81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38707", "url": "https://www.uniprot.org/uniprotkb/P38707" } ], "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": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707", "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": "MSSLYIKEATGVDELT", "down_seq": "AGSQDHPFKTPAYALFASQQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061" }, { "database": "iPTMnet", "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr17" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "62", "end_pos": "62" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38707-1.10.10", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38707-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38707-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38707-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38707-1.35.35", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38707-1.20.20", "start_pos": 20, "end_pos": 20, "uniprot_canonical_ac": "P38707-1", "length": 554, "uniprot_id": "SYNC_YEAST", "protein_name": "Asparagine--tRNA ligase, cytoplasmic", "refseq_ac": "NP_011883", "refseq_name": "asparagine--tRNA ligase DED81", "gene_name": "DED81", "gene_names_uniprotkb": "DED81", "gene_names_refseq": "DED81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38707", "url": "https://www.uniprot.org/uniprotkb/P38707" } ], "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": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "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": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707", "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": "", "down_seq": "QDHPFKTPAYALFASQQKSD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061" }, { "database": "iPTMnet", "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser20" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "62", "end_pos": "62" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38707-1.10.10", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38707-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38707-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38707-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38707-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38707-1.39.39", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38707-1.229.229", "start_pos": 229, "end_pos": 229, "uniprot_canonical_ac": "P38707-1", "length": 554, "uniprot_id": "SYNC_YEAST", "protein_name": "Asparagine--tRNA ligase, cytoplasmic", "refseq_ac": "NP_011883", "refseq_name": "asparagine--tRNA ligase DED81", "gene_name": "DED81", "gene_names_uniprotkb": "DED81", "gene_names_refseq": "DED81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38707", "url": "https://www.uniprot.org/uniprotkb/P38707" } ], "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": "P38707", "url": "https://www.uniprot.org/uniprotkb/P38707" }, { "database": "iPTMnet", "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "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": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "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": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "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": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "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": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061", "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": "EVVGLAPGGEDSFTNKIAEG", "down_seq": "DPSLLLDQRHLALRGDALSA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061" }, { "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": "Ser229" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "62", "end_pos": "62" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38707-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38707-1.248.248", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38707-1.232.232", "start_pos": 232, "end_pos": 232, "uniprot_canonical_ac": "P38707-1", "length": 554, "uniprot_id": "SYNC_YEAST", "protein_name": "Asparagine--tRNA ligase, cytoplasmic", "refseq_ac": "NP_011883", "refseq_name": "asparagine--tRNA ligase DED81", "gene_name": "DED81", "gene_names_uniprotkb": "DED81", "gene_names_refseq": "DED81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38707", "url": "https://www.uniprot.org/uniprotkb/P38707" } ], "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": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "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": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707", "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": "GLAPGGEDSFTNKIAEGSDP", "down_seq": "LLLDQRHLALRGDALSAVMK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061" }, { "database": "iPTMnet", "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser232" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "62", "end_pos": "62" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38707-1.229.229", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38707-1.248.248", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38707-1.248.248", "start_pos": 248, "end_pos": 248, "uniprot_canonical_ac": "P38707-1", "length": 554, "uniprot_id": "SYNC_YEAST", "protein_name": "Asparagine--tRNA ligase, cytoplasmic", "refseq_ac": "NP_011883", "refseq_name": "asparagine--tRNA ligase DED81", "gene_name": "DED81", "gene_names_uniprotkb": "DED81", "gene_names_refseq": "DED81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38707", "url": "https://www.uniprot.org/uniprotkb/P38707" } ], "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": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "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": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707", "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": "GSDPSLLLDQRHLALRGDAL", "down_seq": "AVMKVRAALLKSVRRVYDEE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061" }, { "database": "iPTMnet", "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser248" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "62", "end_pos": "62" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38707-1.229.229", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38707-1.232.232", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38707-1.27.27", "start_pos": 27, "end_pos": 27, "uniprot_canonical_ac": "P38707-1", "length": 554, "uniprot_id": "SYNC_YEAST", "protein_name": "Asparagine--tRNA ligase, cytoplasmic", "refseq_ac": "NP_011883", "refseq_name": "asparagine--tRNA ligase DED81", "gene_name": "DED81", "gene_names_uniprotkb": "DED81", "gene_names_refseq": "DED81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38707", "url": "https://www.uniprot.org/uniprotkb/P38707" } ], "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": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707", "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": "KEATGVDELTTAGSQDHPFK", "down_seq": "PAYALFASQQKSDATEPKLF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061" }, { "database": "iPTMnet", "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr27" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "62", "end_pos": "62" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38707-1.10.10", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38707-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38707-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38707-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38707-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38707-1.39.39", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38707-1.35.35", "start_pos": 35, "end_pos": 35, "uniprot_canonical_ac": "P38707-1", "length": 554, "uniprot_id": "SYNC_YEAST", "protein_name": "Asparagine--tRNA ligase, cytoplasmic", "refseq_ac": "NP_011883", "refseq_name": "asparagine--tRNA ligase DED81", "gene_name": "DED81", "gene_names_uniprotkb": "DED81", "gene_names_refseq": "DED81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38707", "url": "https://www.uniprot.org/uniprotkb/P38707" } ], "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": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "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": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707", "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": "LTTAGSQDHPFKTPAYALFA", "down_seq": "QQKSDATEPKLFVFKTEDNE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061" }, { "database": "iPTMnet", "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser35" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "62", "end_pos": "62" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38707-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P38707-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38707-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38707-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38707-1.39.39", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38707-1.39.39", "start_pos": 39, "end_pos": 39, "uniprot_canonical_ac": "P38707-1", "length": 554, "uniprot_id": "SYNC_YEAST", "protein_name": "Asparagine--tRNA ligase, cytoplasmic", "refseq_ac": "NP_011883", "refseq_name": "asparagine--tRNA ligase DED81", "gene_name": "DED81", "gene_names_uniprotkb": "DED81", "gene_names_refseq": "DED81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38707", "url": "https://www.uniprot.org/uniprotkb/P38707" } ], "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": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707", "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": "GSQDHPFKTPAYALFASQQK", "down_seq": "DATEPKLFVFKTEDNEYQEI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061" }, { "database": "iPTMnet", "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser39" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "62", "end_pos": "62" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38707-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38707-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38707-1.35.35", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38707-1.452.452", "start_pos": 452, "end_pos": 452, "uniprot_canonical_ac": "P38707-1", "length": 554, "uniprot_id": "SYNC_YEAST", "protein_name": "Asparagine--tRNA ligase, cytoplasmic", "refseq_ac": "NP_011883", "refseq_name": "asparagine--tRNA ligase DED81", "gene_name": "DED81", "gene_names_uniprotkb": "DED81", "gene_names_refseq": "DED81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38707", "url": "https://www.uniprot.org/uniprotkb/P38707" } ], "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": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707", "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": "KMTDTIGVPIFLTRFPVEIK", "down_seq": "FYMKRCSDDPRVTESVDVLM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061" }, { "database": "iPTMnet", "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser452" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "62", "end_pos": "62" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "P38707-1.459.459", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38707-1.459.459", "start_pos": 459, "end_pos": 459, "uniprot_canonical_ac": "P38707-1", "length": 554, "uniprot_id": "SYNC_YEAST", "protein_name": "Asparagine--tRNA ligase, cytoplasmic", "refseq_ac": "NP_011883", "refseq_name": "asparagine--tRNA ligase DED81", "gene_name": "DED81", "gene_names_uniprotkb": "DED81", "gene_names_refseq": "DED81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38707", "url": "https://www.uniprot.org/uniprotkb/P38707" } ], "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": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707", "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": "VPIFLTRFPVEIKSFYMKRC", "down_seq": "DDPRVTESVDVLMPNVGEIT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061" }, { "database": "iPTMnet", "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser459" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "62", "end_pos": "62" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38707-1.452.452", "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": "P38707-1.549.549", "start_pos": 549, "end_pos": 549, "uniprot_canonical_ac": "P38707-1", "length": 554, "uniprot_id": "SYNC_YEAST", "protein_name": "Asparagine--tRNA ligase, cytoplasmic", "refseq_ac": "NP_011883", "refseq_name": "asparagine--tRNA ligase DED81", "gene_name": "DED81", "gene_names_uniprotkb": "DED81", "gene_names_refseq": "DED81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38707", "url": "https://www.uniprot.org/uniprotkb/P38707" } ], "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": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707", "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": "ILAWLCDRFTVRDCSLYPRF", "down_seq": "GRCKP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061" }, { "database": "iPTMnet", "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser549" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "62", "end_pos": "62" } ] } ], "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": "P38707-1.60.60", "start_pos": 60, "end_pos": 60, "uniprot_canonical_ac": "P38707-1", "length": 554, "uniprot_id": "SYNC_YEAST", "protein_name": "Asparagine--tRNA ligase, cytoplasmic", "refseq_ac": "NP_011883", "refseq_name": "asparagine--tRNA ligase DED81", "gene_name": "DED81", "gene_names_uniprotkb": "DED81", "gene_names_refseq": "DED81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38707", "url": "https://www.uniprot.org/uniprotkb/P38707" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "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": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "reference": [ { "type": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ] } ], "crossref": [ { "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DATEPKLFVFKTEDNEYQEI", "down_seq": "ASALKKARKGCDGLKKKAVK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061" }, { "database": "iPTMnet", "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" }, { "database": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ], "site_lbl": "Ser60" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "62", "end_pos": "62" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38707-1.62.62", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38707-1.62.62", "start_pos": 62, "end_pos": 62, "uniprot_canonical_ac": "P38707-1", "length": 554, "uniprot_id": "SYNC_YEAST", "protein_name": "Asparagine--tRNA ligase, cytoplasmic", "refseq_ac": "NP_011883", "refseq_name": "asparagine--tRNA ligase DED81", "gene_name": "DED81", "gene_names_uniprotkb": "DED81", "gene_names_refseq": "DED81", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38707", "url": "https://www.uniprot.org/uniprotkb/P38707" } ], "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": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "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": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "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": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" } ], "reference": [ { "type": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ] } ], "crossref": [ { "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707", "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" ] }, { "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TEPKLFVFKTEDNEYQEISA", "down_seq": "ALKKARKGCDGLKKKAVKQK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001061", "url": "https://www.yeastgenome.org/locus/S000001061" }, { "database": "iPTMnet", "id": "P38707", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38707" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ], "site_lbl": "Ser62" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "549", "end_pos": "549" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "62", "end_pos": "62" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38707-1.60.60", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38708-1.145.145", "start_pos": 145, "end_pos": 145, "uniprot_canonical_ac": "P38708-1", "length": 688, "uniprot_id": "YHI0_YEAST", "protein_name": "Putative proline--tRNA ligase YHR020W", "refseq_ac": "NP_011884", "refseq_name": "proline--tRNA ligase", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708" } ], "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": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708", "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": "KSDMMKFLNNFEDSQKVVDF", "down_seq": "QEVSKETATEGKKQQKKQQP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062" }, { "database": "iPTMnet", "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser145" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "650", "end_pos": "650" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "687", "end_pos": "687" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P38708-1.149.149", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38708-1.149.149", "start_pos": 149, "end_pos": 149, "uniprot_canonical_ac": "P38708-1", "length": 688, "uniprot_id": "YHI0_YEAST", "protein_name": "Putative proline--tRNA ligase YHR020W", "refseq_ac": "NP_011884", "refseq_name": "proline--tRNA ligase", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708" } ], "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": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708" }, { "database": "iPTMnet", "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" } ], "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": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062", "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": "MKFLNNFEDSQKVVDFSQEV", "down_seq": "KETATEGKKQQKKQQPSKAG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" }, { "database": "SGD", "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser149" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "650", "end_pos": "650" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "687", "end_pos": "687" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38708-1.145.145", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38708-1.166.166", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38708-1.166.166", "start_pos": 166, "end_pos": 166, "uniprot_canonical_ac": "P38708-1", "length": 688, "uniprot_id": "YHI0_YEAST", "protein_name": "Putative proline--tRNA ligase YHR020W", "refseq_ac": "NP_011884", "refseq_name": "proline--tRNA ligase", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708" } ], "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": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708", "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": "QEVSKETATEGKKQQKKQQP", "down_seq": "KAGTAAAAAAAALEDAKLIG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062" }, { "database": "iPTMnet", "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser166" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "650", "end_pos": "650" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "687", "end_pos": "687" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38708-1.149.149", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38708-1.170.170", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38708-1.170.170", "start_pos": 170, "end_pos": 170, "uniprot_canonical_ac": "P38708-1", "length": 688, "uniprot_id": "YHI0_YEAST", "protein_name": "Putative proline--tRNA ligase YHR020W", "refseq_ac": "NP_011884", "refseq_name": "proline--tRNA ligase", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708" } ], "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": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708" }, { "database": "iPTMnet", "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" } ], "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": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062", "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": "KETATEGKKQQKKQQPSKAG", "down_seq": "AAAAAAAALEDAKLIGITVD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" }, { "database": "SGD", "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr170" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "650", "end_pos": "650" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "687", "end_pos": "687" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38708-1.166.166", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38708-1.26.26", "start_pos": 26, "end_pos": 26, "uniprot_canonical_ac": "P38708-1", "length": 688, "uniprot_id": "YHI0_YEAST", "protein_name": "Putative proline--tRNA ligase YHR020W", "refseq_ac": "NP_011884", "refseq_name": "proline--tRNA ligase", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708" } ], "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": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708", "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": "AFAKLCVNEKPPAESAVAVK", "down_seq": "LVFKPKTPKSATPVPIVVVA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062" }, { "database": "iPTMnet", "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser26" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "650", "end_pos": "650" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "687", "end_pos": "687" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "P38708-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38708-1.36.36", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38708-1.38.38", "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": "P38708-1.280.280", "start_pos": 280, "end_pos": 280, "uniprot_canonical_ac": "P38708-1", "length": 688, "uniprot_id": "YHI0_YEAST", "protein_name": "Putative proline--tRNA ligase YHR020W", "refseq_ac": "NP_011884", "refseq_name": "proline--tRNA ligase", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708" } ], "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": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" } ], "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": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708", "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": "KEKDHVEGFAPEVAWVTRAG", "down_seq": "SELEEPIAIRPTSETVMYPY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062" }, { "database": "iPTMnet", "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser280" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "650", "end_pos": "650" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "687", "end_pos": "687" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38708-1.281.281", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38708-1.281.281", "start_pos": 281, "end_pos": 281, "uniprot_canonical_ac": "P38708-1", "length": 688, "uniprot_id": "YHI0_YEAST", "protein_name": "Putative proline--tRNA ligase YHR020W", "refseq_ac": "NP_011884", "refseq_name": "proline--tRNA ligase", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708" } ], "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": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" } ], "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": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708", "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": "EKDHVEGFAPEVAWVTRAGS", "down_seq": "ELEEPIAIRPTSETVMYPYY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062" }, { "database": "iPTMnet", "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" }, { "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": "145", "end_pos": "145" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "650", "end_pos": "650" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "687", "end_pos": "687" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38708-1.280.280", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38708-1.320.320", "start_pos": 320, "end_pos": 320, "uniprot_canonical_ac": "P38708-1", "length": 688, "uniprot_id": "YHI0_YEAST", "protein_name": "Putative proline--tRNA ligase YHR020W", "refseq_ac": "NP_011884", "refseq_name": "proline--tRNA ligase", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708" } ], "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": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" } ], "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": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708", "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": "YYAKWVQSYRDLPLKLNQWN", "down_seq": "VVRWEFKHPQPFLRTREFLW", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062" }, { "database": "iPTMnet", "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser320" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "650", "end_pos": "650" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "687", "end_pos": "687" } ] } ], "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": "P38708-1.33.33", "start_pos": 33, "end_pos": 33, "uniprot_canonical_ac": "P38708-1", "length": 688, "uniprot_id": "YHI0_YEAST", "protein_name": "Putative proline--tRNA ligase YHR020W", "refseq_ac": "NP_011884", "refseq_name": "proline--tRNA ligase", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708" } ], "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": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708", "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": "NEKPPAESAVAVKSLVFKPK", "down_seq": "PKSATPVPIVVVALQSTTTP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062" }, { "database": "iPTMnet", "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr33" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "650", "end_pos": "650" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "687", "end_pos": "687" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38708-1.26.26", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38708-1.36.36", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38708-1.38.38", "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": "P38708-1.36.36", "start_pos": 36, "end_pos": 36, "uniprot_canonical_ac": "P38708-1", "length": 688, "uniprot_id": "YHI0_YEAST", "protein_name": "Putative proline--tRNA ligase YHR020W", "refseq_ac": "NP_011884", "refseq_name": "proline--tRNA ligase", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "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": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" } ], "reference": [ { "type": "PubMed", "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475" } ] } ], "crossref": [ { "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PPAESAVAVKSLVFKPKTPK", "down_seq": "ATPVPIVVVALQSTTTPSAL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062" }, { "database": "iPTMnet", "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" }, { "database": "PubMed", "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475" } ], "site_lbl": "Ser36" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "650", "end_pos": "650" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "687", "end_pos": "687" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38708-1.26.26", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38708-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38708-1.38.38", "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": "P38708-1.38.38", "start_pos": 38, "end_pos": 38, "uniprot_canonical_ac": "P38708-1", "length": 688, "uniprot_id": "YHI0_YEAST", "protein_name": "Putative proline--tRNA ligase YHR020W", "refseq_ac": "NP_011884", "refseq_name": "proline--tRNA ligase", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "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": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" } ], "reference": [ { "type": "PubMed", "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475", "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": "AESAVAVKSLVFKPKTPKSA", "down_seq": "PVPIVVVALQSTTTPSALIA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062" }, { "database": "iPTMnet", "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" }, { "database": "PubMed", "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr38" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "650", "end_pos": "650" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "687", "end_pos": "687" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38708-1.26.26", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38708-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38708-1.36.36", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38708-1.433.433", "start_pos": 433, "end_pos": 433, "uniprot_canonical_ac": "P38708-1", "length": 688, "uniprot_id": "YHI0_YEAST", "protein_name": "Putative proline--tRNA ligase YHR020W", "refseq_ac": "NP_011884", "refseq_name": "proline--tRNA ligase", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708" } ], "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": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708", "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": "HHLGQNFSKMFNLSVENPLG", "down_seq": "DHPKIFAYQNSWGLSTRVIG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062" }, { "database": "iPTMnet", "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser433" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "650", "end_pos": "650" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "687", "end_pos": "687" } ] } ], "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": "P38708-1.472.472", "start_pos": 472, "end_pos": 472, "uniprot_canonical_ac": "P38708-1", "length": 688, "uniprot_id": "YHI0_YEAST", "protein_name": "Putative proline--tRNA ligase YHR020W", "refseq_ac": "NP_011884", "refseq_name": "proline--tRNA ligase", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708" } ], "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": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708", "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": "IGVMVMIHSDNKGLVIPPRV", "down_seq": "QFQSVVIPVGITKKTSEEQR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062" }, { "database": "iPTMnet", "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser472" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "650", "end_pos": "650" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "687", "end_pos": "687" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P38708-1.476.476", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38708-1.476.476", "start_pos": 476, "end_pos": 476, "uniprot_canonical_ac": "P38708-1", "length": 688, "uniprot_id": "YHI0_YEAST", "protein_name": "Putative proline--tRNA ligase YHR020W", "refseq_ac": "NP_011884", "refseq_name": "proline--tRNA ligase", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708" } ], "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": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708", "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": "VMIHSDNKGLVIPPRVSQFQ", "down_seq": "VVIPVGITKKTSEEQRKHIH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062" }, { "database": "iPTMnet", "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser476" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "650", "end_pos": "650" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "687", "end_pos": "687" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38708-1.472.472", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38708-1.4.4", "start_pos": 4, "end_pos": 4, "uniprot_canonical_ac": "P38708-1", "length": 688, "uniprot_id": "YHI0_YEAST", "protein_name": "Putative proline--tRNA ligase YHR020W", "refseq_ac": "NP_011884", "refseq_name": "proline--tRNA ligase", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708" } ], "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": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708", "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": "MPV", "down_seq": "EAFAKLCVNEKPPAESAVAV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062" }, { "database": "iPTMnet", "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser4" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "650", "end_pos": "650" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "687", "end_pos": "687" } ] } ], "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": "P38708-1.528.528", "start_pos": 528, "end_pos": 528, "uniprot_canonical_ac": "P38708-1", "length": 688, "uniprot_id": "YHI0_YEAST", "protein_name": "Putative proline--tRNA ligase YHR020W", "refseq_ac": "NP_011884", "refseq_name": "proline--tRNA ligase", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708" } ], "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": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708", "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": "KVGIRAFGDYNDNYTPGWKF", "down_seq": "QYELKGIPIRIELGPKDIEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062" }, { "database": "iPTMnet", "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser528" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "650", "end_pos": "650" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "687", "end_pos": "687" } ] } ], "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": "P38708-1.650.650", "start_pos": 650, "end_pos": 650, "uniprot_canonical_ac": "P38708-1", "length": 688, "uniprot_id": "YHI0_YEAST", "protein_name": "Putative proline--tRNA ligase YHR020W", "refseq_ac": "NP_011884", "refseq_name": "proline--tRNA ligase", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708" } ], "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": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708", "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": "KESSAKKDDGEEFEEDDKAP", "down_seq": "MGAKSLCIPFDQPVLNEGQK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062" }, { "database": "iPTMnet", "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser650" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "650", "end_pos": "650" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "687", "end_pos": "687" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P38708-1.655.655", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38708-1.655.655", "start_pos": 655, "end_pos": 655, "uniprot_canonical_ac": "P38708-1", "length": 688, "uniprot_id": "YHI0_YEAST", "protein_name": "Putative proline--tRNA ligase YHR020W", "refseq_ac": "NP_011884", "refseq_name": "proline--tRNA ligase", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708" } ], "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": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708" }, { "database": "iPTMnet", "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" } ], "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": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062", "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": "KKDDGEEFEEDDKAPSMGAK", "down_seq": "LCIPFDQPVLNEGQKCIKCE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" }, { "database": "SGD", "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser655" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "650", "end_pos": "650" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "687", "end_pos": "687" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38708-1.650.650", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38708-1.687.687", "start_pos": 687, "end_pos": 687, "uniprot_canonical_ac": "P38708-1", "length": 688, "uniprot_id": "YHI0_YEAST", "protein_name": "Putative proline--tRNA ligase YHR020W", "refseq_ac": "NP_011884", "refseq_name": "proline--tRNA ligase", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38708", "url": "https://www.uniprot.org/uniprotkb/P38708" } ], "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": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708", "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": "EGQKCIKCERIAVNYCMFGR", "down_seq": "", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001062", "url": "https://www.yeastgenome.org/locus/S000001062" }, { "database": "iPTMnet", "id": "P38708", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38708" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser687" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "145", "end_pos": "145" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "650", "end_pos": "650" }, { "start_pos": "655", "end_pos": "655" }, { "start_pos": "687", "end_pos": "687" } ] } ], "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": "P38732-1.415.415", "start_pos": 415, "end_pos": 415, "uniprot_canonical_ac": "P38732-1", "length": 585, "uniprot_id": "EFM1_YEAST", "protein_name": "Protein-lysine N-methyltransferase EFM1", "refseq_ac": "NP_011824", "refseq_name": "protein-lysine N-methyltransferase", "gene_name": "EFM1", "gene_names_uniprotkb": "EFM1", "gene_names_refseq": "EFM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38732", "url": "https://www.uniprot.org/uniprotkb/P38732" } ], "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": "iPTMnet", "id": "P38732", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38732" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38732", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38732", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001031", "url": "https://www.yeastgenome.org/locus/S000001031", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "KIKTSSTQKLRPHVIKLIKL", "down_seq": "YQDNKKILNATTEKLSVLQK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38732", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38732" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001031", "url": "https://www.yeastgenome.org/locus/S000001031" } ], "site_lbl": "Tyr415" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "415", "end_pos": "415" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "81", "end_pos": "81" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38732-1.416.416", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38732-1.416.416", "start_pos": 416, "end_pos": 416, "uniprot_canonical_ac": "P38732-1", "length": 585, "uniprot_id": "EFM1_YEAST", "protein_name": "Protein-lysine N-methyltransferase EFM1", "refseq_ac": "NP_011824", "refseq_name": "protein-lysine N-methyltransferase", "gene_name": "EFM1", "gene_names_uniprotkb": "EFM1", "gene_names_refseq": "EFM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38732", "url": "https://www.uniprot.org/uniprotkb/P38732" } ], "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": "iPTMnet", "id": "P38732", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38732" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38732", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38732", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001031", "url": "https://www.yeastgenome.org/locus/S000001031", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "IKTSSTQKLRPHVIKLIKLY", "down_seq": "QDNKKILNATTEKLSVLQKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38732", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38732" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001031", "url": "https://www.yeastgenome.org/locus/S000001031" } ], "site_lbl": "Tyr416" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "415", "end_pos": "415" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "81", "end_pos": "81" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38732-1.415.415", "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": "P38732-1.77.77", "start_pos": 77, "end_pos": 77, "uniprot_canonical_ac": "P38732-1", "length": 585, "uniprot_id": "EFM1_YEAST", "protein_name": "Protein-lysine N-methyltransferase EFM1", "refseq_ac": "NP_011824", "refseq_name": "protein-lysine N-methyltransferase", "gene_name": "EFM1", "gene_names_uniprotkb": "EFM1", "gene_names_refseq": "EFM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38732", "url": "https://www.uniprot.org/uniprotkb/P38732" } ], "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": "P38732", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38732" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] } ], "crossref": [ { "id": "P38732", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38732", "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": "TLLITSQQALSEFSQAANER", "down_seq": "LLNSVTQLYLSKLKFGTDAV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38732", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38732" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ], "site_lbl": "Ser77" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "415", "end_pos": "415" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "81", "end_pos": "81" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P38732-1.81.81", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38732-1.81.81", "start_pos": 81, "end_pos": 81, "uniprot_canonical_ac": "P38732-1", "length": 585, "uniprot_id": "EFM1_YEAST", "protein_name": "Protein-lysine N-methyltransferase EFM1", "refseq_ac": "NP_011824", "refseq_name": "protein-lysine N-methyltransferase", "gene_name": "EFM1", "gene_names_uniprotkb": "EFM1", "gene_names_refseq": "EFM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38732", "url": "https://www.uniprot.org/uniprotkb/P38732" } ], "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": "P38732", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38732" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] } ], "crossref": [ { "id": "P38732", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38732", "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": "TSQQALSEFSQAANERSLLN", "down_seq": "VTQLYLSKLKFGTDAVHLKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38732", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38732" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ], "site_lbl": "Ser81" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "415", "end_pos": "415" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "81", "end_pos": "81" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38732-1.77.77", "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": "P38738-1.108.108", "start_pos": 108, "end_pos": 108, "uniprot_canonical_ac": "P38738-1", "length": 679, "uniprot_id": "OCA5_YEAST", "protein_name": "Oxidant-induced cell-cycle arrest protein 5", "refseq_ac": "NP_011834", "refseq_name": "Oca5p", "gene_name": "OCA5", "gene_names_uniprotkb": "OCA5", "gene_names_refseq": "OCA5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38738", "url": "https://www.uniprot.org/uniprotkb/P38738" } ], "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": "P38738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38738" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001021", "url": "https://www.yeastgenome.org/locus/S000001021", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38738", "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": "DFILNDPFLKSKAPTDKQDK", "down_seq": "DDENILPYDIESIILHDLKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001021", "url": "https://www.yeastgenome.org/locus/S000001021" }, { "database": "iPTMnet", "id": "P38738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38738" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser108" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "6", "end_pos": "6" } ] } ], "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": "P38738-1.532.532", "start_pos": 532, "end_pos": 532, "uniprot_canonical_ac": "P38738-1", "length": 679, "uniprot_id": "OCA5_YEAST", "protein_name": "Oxidant-induced cell-cycle arrest protein 5", "refseq_ac": "NP_011834", "refseq_name": "Oca5p", "gene_name": "OCA5", "gene_names_uniprotkb": "OCA5", "gene_names_refseq": "OCA5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38738", "url": "https://www.uniprot.org/uniprotkb/P38738" } ], "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": "P38738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38738" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P38738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38738", "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": "KELILRNRYGGTQSKAQKDN", "down_seq": "VPSPGSDSNDKSELKLPFSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38738" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr532" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38738-1.535.535", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38738-1.538.538", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38738-1.535.535", "start_pos": 535, "end_pos": 535, "uniprot_canonical_ac": "P38738-1", "length": 679, "uniprot_id": "OCA5_YEAST", "protein_name": "Oxidant-induced cell-cycle arrest protein 5", "refseq_ac": "NP_011834", "refseq_name": "Oca5p", "gene_name": "OCA5", "gene_names_uniprotkb": "OCA5", "gene_names_refseq": "OCA5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38738", "url": "https://www.uniprot.org/uniprotkb/P38738" } ], "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": "P38738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38738" } ], "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": "P38738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38738" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38738", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001021", "url": "https://www.yeastgenome.org/locus/S000001021", "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": "ILRNRYGGTQSKAQKDNTVP", "down_seq": "PGSDSNDKSELKLPFSSIDP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38738" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000001021", "url": "https://www.yeastgenome.org/locus/S000001021" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser535" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38738-1.532.532", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38738-1.538.538", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38738-1.538.538", "start_pos": 538, "end_pos": 538, "uniprot_canonical_ac": "P38738-1", "length": 679, "uniprot_id": "OCA5_YEAST", "protein_name": "Oxidant-induced cell-cycle arrest protein 5", "refseq_ac": "NP_011834", "refseq_name": "Oca5p", "gene_name": "OCA5", "gene_names_uniprotkb": "OCA5", "gene_names_refseq": "OCA5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38738", "url": "https://www.uniprot.org/uniprotkb/P38738" } ], "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": "P38738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38738" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001021", "url": "https://www.yeastgenome.org/locus/S000001021", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38738", "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": "NRYGGTQSKAQKDNTVPSPG", "down_seq": "DSNDKSELKLPFSSIDPHMQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001021", "url": "https://www.yeastgenome.org/locus/S000001021" }, { "database": "iPTMnet", "id": "P38738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38738" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser538" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38738-1.532.532", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38738-1.535.535", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38738-1.6.6", "start_pos": 6, "end_pos": 6, "uniprot_canonical_ac": "P38738-1", "length": 679, "uniprot_id": "OCA5_YEAST", "protein_name": "Oxidant-induced cell-cycle arrest protein 5", "refseq_ac": "NP_011834", "refseq_name": "Oca5p", "gene_name": "OCA5", "gene_names_uniprotkb": "OCA5", "gene_names_refseq": "OCA5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38738", "url": "https://www.uniprot.org/uniprotkb/P38738" } ], "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": "iPTMnet", "id": "P38738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38738" } ], "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": "P38738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38738" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38738", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001021", "url": "https://www.yeastgenome.org/locus/S000001021", "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": "MHDKK", "down_seq": "PMANSHYLKNLKQQFRNKNL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P00546-1", "kinase_gene_name": "CDC28", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38738" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ], "site_lbl": "Ser6" }, { "kinase_uniprot_canonical_ac": "P24869-1", "kinase_gene_name": "CLB2", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38738" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ], "site_lbl": "Ser6" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001021", "url": "https://www.yeastgenome.org/locus/S000001021" }, { "database": "iPTMnet", "id": "P38738", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38738" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser6" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "108", "end_pos": "108" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "6", "end_pos": "6" } ] } ], "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": 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": "P38739-1.340.340", "start_pos": 340, "end_pos": 340, "uniprot_canonical_ac": "P38739-1", "length": 605, "uniprot_id": "WSC4_YEAST", "protein_name": "Cell wall integrity and stress response component 4", "refseq_ac": "NP_011835", "refseq_name": "Wsc4p", "gene_name": "WSC4", "gene_names_uniprotkb": "WSC4", "gene_names_refseq": "WSC4; YFW1; YHC8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38739", "url": "https://www.uniprot.org/uniprotkb/P38739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38739", "url": "https://www.uniprot.org/uniprotkb/P38739", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "LQTSLKYSVITVTSVHTMDT", "down_seq": "ISEITSRYLTMKKVITQIYS", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn340", "evidence": [ { "id": "P38739", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38739#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "340", "end_pos": "340" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "583", "end_pos": "583" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "350", "end_pos": "350" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "upstream", "id": "P38739-1.350.350", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38739-1.368.368", "start_pos": 368, "end_pos": 368, "uniprot_canonical_ac": "P38739-1", "length": 605, "uniprot_id": "WSC4_YEAST", "protein_name": "Cell wall integrity and stress response component 4", "refseq_ac": "NP_011835", "refseq_name": "Wsc4p", "gene_name": "WSC4", "gene_names_uniprotkb": "WSC4", "gene_names_refseq": "WSC4; YFW1; YHC8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38739", "url": "https://www.uniprot.org/uniprotkb/P38739" } ], "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": "YLTMKKVITQIYSSTLGATP", "down_seq": "SAVATTSASVGGRITNNNNS", "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": "Thr368", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "340", "end_pos": "340" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "583", "end_pos": "583" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "350", "end_pos": "350" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38739-1.350.350", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38739-1.386.386", "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": "P38739-1.386.386", "start_pos": 386, "end_pos": 386, "uniprot_canonical_ac": "P38739-1", "length": 605, "uniprot_id": "WSC4_YEAST", "protein_name": "Cell wall integrity and stress response component 4", "refseq_ac": "NP_011835", "refseq_name": "Wsc4p", "gene_name": "WSC4", "gene_names_uniprotkb": "WSC4", "gene_names_refseq": "WSC4; YFW1; YHC8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38739", "url": "https://www.uniprot.org/uniprotkb/P38739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38739", "url": "https://www.uniprot.org/uniprotkb/P38739", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "TPTSAVATTSASVGGRITNN", "down_seq": "NSNTTNSNTPTNKSTEKKGY", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn386", "evidence": [ { "id": "P38739", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38739#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "340", "end_pos": "340" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "583", "end_pos": "583" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "350", "end_pos": "350" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38739-1.368.368", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38739-1.389.389", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38739-1.398.398", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38739-1.389.389", "start_pos": 389, "end_pos": 389, "uniprot_canonical_ac": "P38739-1", "length": 605, "uniprot_id": "WSC4_YEAST", "protein_name": "Cell wall integrity and stress response component 4", "refseq_ac": "NP_011835", "refseq_name": "Wsc4p", "gene_name": "WSC4", "gene_names_uniprotkb": "WSC4", "gene_names_refseq": "WSC4; YFW1; YHC8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38739", "url": "https://www.uniprot.org/uniprotkb/P38739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38739", "url": "https://www.uniprot.org/uniprotkb/P38739", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "SAVATTSASVGGRITNNNNS", "down_seq": "TTNSNTPTNKSTEKKGYWDS", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn389", "evidence": [ { "id": "P38739", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38739#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "340", "end_pos": "340" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "583", "end_pos": "583" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "350", "end_pos": "350" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38739-1.386.386", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38739-1.398.398", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38739-1.398.398", "start_pos": 398, "end_pos": 398, "uniprot_canonical_ac": "P38739-1", "length": 605, "uniprot_id": "WSC4_YEAST", "protein_name": "Cell wall integrity and stress response component 4", "refseq_ac": "NP_011835", "refseq_name": "Wsc4p", "gene_name": "WSC4", "gene_names_uniprotkb": "WSC4", "gene_names_refseq": "WSC4; YFW1; YHC8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38739", "url": "https://www.uniprot.org/uniprotkb/P38739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38739", "url": "https://www.uniprot.org/uniprotkb/P38739", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "VGGRITNNNNSNTTNSNTPT", "down_seq": "KSTEKKGYWDSPGKIAATFV", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn398", "evidence": [ { "id": "P38739", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38739#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "340", "end_pos": "340" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "583", "end_pos": "583" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "350", "end_pos": "350" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38739-1.386.386", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38739-1.389.389", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38739-1.479.479", "start_pos": 479, "end_pos": 479, "uniprot_canonical_ac": "P38739-1", "length": 605, "uniprot_id": "WSC4_YEAST", "protein_name": "Cell wall integrity and stress response component 4", "refseq_ac": "NP_011835", "refseq_name": "Wsc4p", "gene_name": "WSC4", "gene_names_uniprotkb": "WSC4", "gene_names_refseq": "WSC4; YFW1; YHC8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38739", "url": "https://www.uniprot.org/uniprotkb/P38739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38739", "url": "https://www.uniprot.org/uniprotkb/P38739", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "QSKYPNEVTTTTLHTPSPSS", "down_seq": "STFSTPRLIYTDEKGQIMSE", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn479", "evidence": [ { "id": "P38739", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38739#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "340", "end_pos": "340" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "583", "end_pos": "583" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "350", "end_pos": "350" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "upstream", "id": "P38739-1.498.498", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38739-1.553.553", "start_pos": 553, "end_pos": 553, "uniprot_canonical_ac": "P38739-1", "length": 605, "uniprot_id": "WSC4_YEAST", "protein_name": "Cell wall integrity and stress response component 4", "refseq_ac": "NP_011835", "refseq_name": "Wsc4p", "gene_name": "WSC4", "gene_names_uniprotkb": "WSC4", "gene_names_refseq": "WSC4; YFW1; YHC8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38739", "url": "https://www.uniprot.org/uniprotkb/P38739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38739", "url": "https://www.uniprot.org/uniprotkb/P38739", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "RRTSTFLHSPIQKQHEKMES", "down_seq": "VTLGEDTVLVDQRLDPSKML", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn553", "evidence": [ { "id": "P38739", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38739#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "340", "end_pos": "340" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "583", "end_pos": "583" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "350", "end_pos": "350" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38739-1.536.536", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38739-1.541.541", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38739-1.583.583", "start_pos": 583, "end_pos": 583, "uniprot_canonical_ac": "P38739-1", "length": 605, "uniprot_id": "WSC4_YEAST", "protein_name": "Cell wall integrity and stress response component 4", "refseq_ac": "NP_011835", "refseq_name": "Wsc4p", "gene_name": "WSC4", "gene_names_uniprotkb": "WSC4", "gene_names_refseq": "WSC4; YFW1; YHC8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38739", "url": "https://www.uniprot.org/uniprotkb/P38739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38739", "url": "https://www.uniprot.org/uniprotkb/P38739", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "VDQRLDPSKMLNTLANDDAT", "down_seq": "HSTISLSDNVDYSRRVLRLM", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn583", "evidence": [ { "id": "P38739", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38739#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "340", "end_pos": "340" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "583", "end_pos": "583" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "350", "end_pos": "350" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38739-1.350.350", "start_pos": 350, "end_pos": 350, "uniprot_canonical_ac": "P38739-1", "length": 605, "uniprot_id": "WSC4_YEAST", "protein_name": "Cell wall integrity and stress response component 4", "refseq_ac": "NP_011835", "refseq_name": "Wsc4p", "gene_name": "WSC4", "gene_names_uniprotkb": "WSC4", "gene_names_refseq": "WSC4; YFW1; YHC8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38739", "url": "https://www.uniprot.org/uniprotkb/P38739" } ], "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": "iPTMnet", "id": "P38739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38739" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001020", "url": "https://www.yeastgenome.org/locus/S000001020", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "TVTSVHTMDTNISEITSRYL", "down_seq": "MKKVITQIYSSTLGATPTSA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38739" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001020", "url": "https://www.yeastgenome.org/locus/S000001020" } ], "site_lbl": "Thr350" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "340", "end_pos": "340" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "583", "end_pos": "583" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "350", "end_pos": "350" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38739-1.340.340", "categories": [ "glycosylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38739-1.368.368", "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": "P38739-1.498.498", "start_pos": 498, "end_pos": 498, "uniprot_canonical_ac": "P38739-1", "length": 605, "uniprot_id": "WSC4_YEAST", "protein_name": "Cell wall integrity and stress response component 4", "refseq_ac": "NP_011835", "refseq_name": "Wsc4p", "gene_name": "WSC4", "gene_names_uniprotkb": "WSC4", "gene_names_refseq": "WSC4; YFW1; YHC8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38739", "url": "https://www.uniprot.org/uniprotkb/P38739" } ], "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": "P38739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38739" } ], "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": "P38739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001020", "url": "https://www.yeastgenome.org/locus/S000001020", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38739", "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": "SNSTFSTPRLIYTDEKGQIM", "down_seq": "ESPSPRQSTYSLTAGSPPND", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001020", "url": "https://www.yeastgenome.org/locus/S000001020" }, { "database": "iPTMnet", "id": "P38739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38739" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser498" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "340", "end_pos": "340" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "583", "end_pos": "583" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "350", "end_pos": "350" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38739-1.479.479", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38739-1.500.500", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38739-1.502.502", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38739-1.500.500", "start_pos": 500, "end_pos": 500, "uniprot_canonical_ac": "P38739-1", "length": 605, "uniprot_id": "WSC4_YEAST", "protein_name": "Cell wall integrity and stress response component 4", "refseq_ac": "NP_011835", "refseq_name": "Wsc4p", "gene_name": "WSC4", "gene_names_uniprotkb": "WSC4", "gene_names_refseq": "WSC4; YFW1; YHC8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38739", "url": "https://www.uniprot.org/uniprotkb/P38739" } ], "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": "P38739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001020", "url": "https://www.yeastgenome.org/locus/S000001020", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38739", "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": "STFSTPRLIYTDEKGQIMSE", "down_seq": "PSPRQSTYSLTAGSPPNDPS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001020", "url": "https://www.yeastgenome.org/locus/S000001020" }, { "database": "iPTMnet", "id": "P38739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38739" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser500" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "340", "end_pos": "340" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "583", "end_pos": "583" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "350", "end_pos": "350" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38739-1.498.498", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38739-1.502.502", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38739-1.502.502", "start_pos": 502, "end_pos": 502, "uniprot_canonical_ac": "P38739-1", "length": 605, "uniprot_id": "WSC4_YEAST", "protein_name": "Cell wall integrity and stress response component 4", "refseq_ac": "NP_011835", "refseq_name": "Wsc4p", "gene_name": "WSC4", "gene_names_uniprotkb": "WSC4", "gene_names_refseq": "WSC4; YFW1; YHC8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38739", "url": "https://www.uniprot.org/uniprotkb/P38739" } ], "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": "P38739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38739" } ], "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": "P38739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38739" } ], "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": "P38739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001020", "url": "https://www.yeastgenome.org/locus/S000001020", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38739", "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": "FSTPRLIYTDEKGQIMSESP", "down_seq": "PRQSTYSLTAGSPPNDPSTL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001020", "url": "https://www.yeastgenome.org/locus/S000001020" }, { "database": "iPTMnet", "id": "P38739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38739" }, { "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": "Ser502" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "340", "end_pos": "340" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "583", "end_pos": "583" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "350", "end_pos": "350" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38739-1.498.498", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38739-1.500.500", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38739-1.536.536", "start_pos": 536, "end_pos": 536, "uniprot_canonical_ac": "P38739-1", "length": 605, "uniprot_id": "WSC4_YEAST", "protein_name": "Cell wall integrity and stress response component 4", "refseq_ac": "NP_011835", "refseq_name": "Wsc4p", "gene_name": "WSC4", "gene_names_uniprotkb": "WSC4", "gene_names_refseq": "WSC4; YFW1; YHC8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38739", "url": "https://www.uniprot.org/uniprotkb/P38739" } ], "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": "iPTMnet", "id": "P38739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38739" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001020", "url": "https://www.yeastgenome.org/locus/S000001020", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PNDPSTLASPFHDPILPRRT", "down_seq": "TFLHSPIQKQHEKMESNVTL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38739" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001020", "url": "https://www.yeastgenome.org/locus/S000001020" } ], "site_lbl": "Ser536" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "340", "end_pos": "340" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "583", "end_pos": "583" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "350", "end_pos": "350" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P38739-1.541.541", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38739-1.553.553", "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": "P38739-1.541.541", "start_pos": 541, "end_pos": 541, "uniprot_canonical_ac": "P38739-1", "length": 605, "uniprot_id": "WSC4_YEAST", "protein_name": "Cell wall integrity and stress response component 4", "refseq_ac": "NP_011835", "refseq_name": "Wsc4p", "gene_name": "WSC4", "gene_names_uniprotkb": "WSC4", "gene_names_refseq": "WSC4; YFW1; YHC8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38739", "url": "https://www.uniprot.org/uniprotkb/P38739" } ], "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": "iPTMnet", "id": "P38739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38739" } ], "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": "P38739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38739" } ], "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": "P38739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001020", "url": "https://www.yeastgenome.org/locus/S000001020", "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": "TLASPFHDPILPRRTSTFLH", "down_seq": "PIQKQHEKMESNVTLGEDTV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P00546-1", "kinase_gene_name": "CDC28", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38739" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ], "site_lbl": "Ser541" }, { "kinase_uniprot_canonical_ac": "P24869-1", "kinase_gene_name": "CLB2", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38739" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ], "site_lbl": "Ser541" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001020", "url": "https://www.yeastgenome.org/locus/S000001020" }, { "database": "iPTMnet", "id": "P38739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38739" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser541" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "340", "end_pos": "340" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "583", "end_pos": "583" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "350", "end_pos": "350" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "536", "end_pos": "536" }, { "start_pos": "541", "end_pos": "541" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38739-1.536.536", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38739-1.553.553", "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": 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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38750-1.20.20", "start_pos": 20, "end_pos": 20, "uniprot_canonical_ac": "P38750-1", "length": 627, "uniprot_id": "YHA8_YEAST", "protein_name": "Uncharacterized transporter YHL008C", "refseq_ac": "NP_011855", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "", "down_seq": "AMKKARLQLDTLLINSILGG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000" } ], "site_lbl": "Thr20" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "499", "end_pos": "499" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "568", "end_pos": "568" }, { "start_pos": "588", "end_pos": "588" } ] } ], "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": "P38750-1.290.290", "start_pos": 290, "end_pos": 290, "uniprot_canonical_ac": "P38750-1", "length": 627, "uniprot_id": "YHA8_YEAST", "protein_name": "Uncharacterized transporter YHL008C", "refseq_ac": "NP_011855", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750", "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": "KRLSLPEYEARDEQPELNMD", "down_seq": "RVVRIQKNECDDDATETGED", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser290" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "499", "end_pos": "499" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "568", "end_pos": "568" }, { "start_pos": "588", "end_pos": "588" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "upstream", "id": "P38750-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38750-1.307.307", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38750-1.305.305", "start_pos": 305, "end_pos": 305, "uniprot_canonical_ac": "P38750-1", "length": 627, "uniprot_id": "YHA8_YEAST", "protein_name": "Uncharacterized transporter YHL008C", "refseq_ac": "NP_011855", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" } ], "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": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750", "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": "ELNMDSRVVRIQKNECDDDA", "down_seq": "ETGEDLENLTEKGFASIYNT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr305" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "499", "end_pos": "499" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "568", "end_pos": "568" }, { "start_pos": "588", "end_pos": "588" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38750-1.290.290", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38750-1.307.307", "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": "P38750-1.307.307", "start_pos": 307, "end_pos": 307, "uniprot_canonical_ac": "P38750-1", "length": 627, "uniprot_id": "YHA8_YEAST", "protein_name": "Uncharacterized transporter YHL008C", "refseq_ac": "NP_011855", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750", "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": "NMDSRVVRIQKNECDDDATE", "down_seq": "GEDLENLTEKGFASIYNTNH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr307" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "499", "end_pos": "499" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "568", "end_pos": "568" }, { "start_pos": "588", "end_pos": "588" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38750-1.290.290", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38750-1.305.305", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38750-1.390.390", "start_pos": 390, "end_pos": 390, "uniprot_canonical_ac": "P38750-1", "length": 627, "uniprot_id": "YHA8_YEAST", "protein_name": "Uncharacterized transporter YHL008C", "refseq_ac": "NP_011855", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750", "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": "SNSTTRSPHLGLPHNLPHNH", "down_seq": "IKSINRHRINKRHSLRSPPG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser390" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "499", "end_pos": "499" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "568", "end_pos": "568" }, { "start_pos": "588", "end_pos": "588" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "upstream", "id": "P38750-1.407.407", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38750-1.407.407", "start_pos": 407, "end_pos": 407, "uniprot_canonical_ac": "P38750-1", "length": 627, "uniprot_id": "YHA8_YEAST", "protein_name": "Uncharacterized transporter YHL008C", "refseq_ac": "NP_011855", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750", "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": "HNHSIKSINRHRINKRHSLR", "down_seq": "PPGVFPVRGMGEPLEREKTI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser407" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "499", "end_pos": "499" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "568", "end_pos": "568" }, { "start_pos": "588", "end_pos": "588" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38750-1.390.390", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38750-1.426.426", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38750-1.426.426", "start_pos": 426, "end_pos": 426, "uniprot_canonical_ac": "P38750-1", "length": 627, "uniprot_id": "YHA8_YEAST", "protein_name": "Uncharacterized transporter YHL008C", "refseq_ac": "NP_011855", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" } ], "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": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "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": "RSPPGVFPVRGMGEPLEREK", "down_seq": "IEDATYDPKENELFLRRAET", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "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": "Thr426" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "499", "end_pos": "499" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "568", "end_pos": "568" }, { "start_pos": "588", "end_pos": "588" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38750-1.407.407", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38750-1.446.446", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38750-1.446.446", "start_pos": 446, "end_pos": 446, "uniprot_canonical_ac": "P38750-1", "length": 627, "uniprot_id": "YHA8_YEAST", "protein_name": "Uncharacterized transporter YHL008C", "refseq_ac": "NP_011855", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750", "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": "TIEDATYDPKENELFLRRAE", "down_seq": "HNSAYVKNKKKEDDNLLRLV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Thr446" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "499", "end_pos": "499" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "568", "end_pos": "568" }, { "start_pos": "588", "end_pos": "588" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38750-1.426.426", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38750-1.449.449", "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": "P38750-1.449.449", "start_pos": 449, "end_pos": 449, "uniprot_canonical_ac": "P38750-1", "length": 627, "uniprot_id": "YHA8_YEAST", "protein_name": "Uncharacterized transporter YHL008C", "refseq_ac": "NP_011855", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750", "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": "DATYDPKENELFLRRAETHN", "down_seq": "AYVKNKKKEDDNLLRLVKTE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser449" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "499", "end_pos": "499" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "568", "end_pos": "568" }, { "start_pos": "588", "end_pos": "588" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38750-1.446.446", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38750-1.468.468", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38750-1.468.468", "start_pos": 468, "end_pos": 468, "uniprot_canonical_ac": "P38750-1", "length": 627, "uniprot_id": "YHA8_YEAST", "protein_name": "Uncharacterized transporter YHL008C", "refseq_ac": "NP_011855", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750", "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": "T", "start_aa": "T", "up_seq": "NSAYVKNKKKEDDNLLRLVK", "down_seq": "EEDREQKEYEKNGGYNILEN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" }, { "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": "Thr468" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "499", "end_pos": "499" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "568", "end_pos": "568" }, { "start_pos": "588", "end_pos": "588" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38750-1.449.449", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38750-1.499.499", "start_pos": 499, "end_pos": 499, "uniprot_canonical_ac": "P38750-1", "length": 627, "uniprot_id": "YHA8_YEAST", "protein_name": "Uncharacterized transporter YHL008C", "refseq_ac": "NP_011855", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" } ], "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": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "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": "KNGGYNILENKPGTRLEKII", "down_seq": "HLAENVSSREVTPPILPRTT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr499" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "499", "end_pos": "499" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "568", "end_pos": "568" }, { "start_pos": "588", "end_pos": "588" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "P38750-1.506.506", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38750-1.507.507", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38750-1.511.511", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38750-1.506.506", "start_pos": 506, "end_pos": 506, "uniprot_canonical_ac": "P38750-1", "length": 627, "uniprot_id": "YHA8_YEAST", "protein_name": "Uncharacterized transporter YHL008C", "refseq_ac": "NP_011855", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" } ], "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": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "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": "LENKPGTRLEKIITHLAENV", "down_seq": "SREVTPPILPRTTQDTFPHN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "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": "Ser506" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "499", "end_pos": "499" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "568", "end_pos": "568" }, { "start_pos": "588", "end_pos": "588" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38750-1.499.499", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38750-1.507.507", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38750-1.511.511", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38750-1.507.507", "start_pos": 507, "end_pos": 507, "uniprot_canonical_ac": "P38750-1", "length": 627, "uniprot_id": "YHA8_YEAST", "protein_name": "Uncharacterized transporter YHL008C", "refseq_ac": "NP_011855", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" } ], "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": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "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": "ENKPGTRLEKIITHLAENVS", "down_seq": "REVTPPILPRTTQDTFPHNA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "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": "Ser507" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "499", "end_pos": "499" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "568", "end_pos": "568" }, { "start_pos": "588", "end_pos": "588" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38750-1.499.499", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38750-1.506.506", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38750-1.511.511", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38750-1.511.511", "start_pos": 511, "end_pos": 511, "uniprot_canonical_ac": "P38750-1", "length": 627, "uniprot_id": "YHA8_YEAST", "protein_name": "Uncharacterized transporter YHL008C", "refseq_ac": "NP_011855", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" } ], "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": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "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": "T", "start_aa": "T", "up_seq": "GTRLEKIITHLAENVSSREV", "down_seq": "PPILPRTTQDTFPHNAPASS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "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": "Thr511" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "499", "end_pos": "499" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "568", "end_pos": "568" }, { "start_pos": "588", "end_pos": "588" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38750-1.499.499", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38750-1.506.506", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38750-1.507.507", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38750-1.540.540", "start_pos": 540, "end_pos": 540, "uniprot_canonical_ac": "P38750-1", "length": 627, "uniprot_id": "YHA8_YEAST", "protein_name": "Uncharacterized transporter YHL008C", "refseq_ac": "NP_011855", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750", "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": "QDTFPHNAPASSPAYTDDAH", "down_seq": "LRKANSTTLGGLFRAVSKEF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser540" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "499", "end_pos": "499" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "568", "end_pos": "568" }, { "start_pos": "588", "end_pos": "588" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P38750-1.546.546", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38750-1.547.547", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38750-1.557.557", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38750-1.546.546", "start_pos": 546, "end_pos": 546, "uniprot_canonical_ac": "P38750-1", "length": 627, "uniprot_id": "YHA8_YEAST", "protein_name": "Uncharacterized transporter YHL008C", "refseq_ac": "NP_011855", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" } ], "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": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000", "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": "NAPASSPAYTDDAHSLRKAN", "down_seq": "TTLGGLFRAVSKEFHSSKDA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000" }, { "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": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "499", "end_pos": "499" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "568", "end_pos": "568" }, { "start_pos": "588", "end_pos": "588" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38750-1.540.540", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38750-1.547.547", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38750-1.557.557", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38750-1.547.547", "start_pos": 547, "end_pos": 547, "uniprot_canonical_ac": "P38750-1", "length": 627, "uniprot_id": "YHA8_YEAST", "protein_name": "Uncharacterized transporter YHL008C", "refseq_ac": "NP_011855", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" } ], "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": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "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": "APASSPAYTDDAHSLRKANS", "down_seq": "TLGGLFRAVSKEFHSSKDAE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr547" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "499", "end_pos": "499" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "568", "end_pos": "568" }, { "start_pos": "588", "end_pos": "588" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38750-1.540.540", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38750-1.546.546", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38750-1.557.557", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38750-1.557.557", "start_pos": 557, "end_pos": 557, "uniprot_canonical_ac": "P38750-1", "length": 627, "uniprot_id": "YHA8_YEAST", "protein_name": "Uncharacterized transporter YHL008C", "refseq_ac": "NP_011855", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750", "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": "DAHSLRKANSTTLGGLFRAV", "down_seq": "KEFHSSKDAESPDDLLKKMA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" }, { "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": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "499", "end_pos": "499" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "568", "end_pos": "568" }, { "start_pos": "588", "end_pos": "588" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38750-1.540.540", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38750-1.546.546", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38750-1.547.547", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38750-1.568.568", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38750-1.568.568", "start_pos": 568, "end_pos": 568, "uniprot_canonical_ac": "P38750-1", "length": 627, "uniprot_id": "YHA8_YEAST", "protein_name": "Uncharacterized transporter YHL008C", "refseq_ac": "NP_011855", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750", "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": "TLGGLFRAVSKEFHSSKDAE", "down_seq": "PDDLLKKMAAVGINRNARIT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser568" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "499", "end_pos": "499" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "568", "end_pos": "568" }, { "start_pos": "588", "end_pos": "588" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38750-1.557.557", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38750-1.588.588", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38750-1.588.588", "start_pos": 588, "end_pos": 588, "uniprot_canonical_ac": "P38750-1", "length": 627, "uniprot_id": "YHA8_YEAST", "protein_name": "Uncharacterized transporter YHL008C", "refseq_ac": "NP_011855", "refseq_name": "uncharacterized protein", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" } ], "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": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "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": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750", "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": "SPDDLLKKMAAVGINRNARI", "down_seq": "ANNVAGIVNLNKEDLDSTTR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38750", "url": "https://www.uniprot.org/uniprotkb/P38750" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001000", "url": "https://www.yeastgenome.org/locus/S000001000" }, { "database": "iPTMnet", "id": "P38750", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38750" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr588" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "468", "end_pos": "468" }, { "start_pos": "499", "end_pos": "499" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "547", "end_pos": "547" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "568", "end_pos": "568" }, { "start_pos": "588", "end_pos": "588" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38750-1.568.568", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38754-1.10.10", "start_pos": 10, "end_pos": 10, "uniprot_canonical_ac": "P38754-1", "length": 138, "uniprot_id": "RL14B_YEAST", "protein_name": "Large ribosomal subunit protein eL14B", "refseq_ac": "NP_011862", "refseq_name": "60S ribosomal protein eL14 RPL14B", "gene_name": "RPL14B", "gene_names_uniprotkb": "RPL14B", "gene_names_refseq": "RPL14B", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38754", "url": "https://www.uniprot.org/uniprotkb/P38754" } ], "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": "iPTMnet", "id": "P38754", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38754" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] } ], "crossref": [ { "id": "P38754", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38754", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MSTDSIVKA", "down_seq": "NWRLVEVGRVVLIKKGQSAG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38754", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38754" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ], "site_lbl": "Ser10" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "97", "end_pos": "97" }, { "start_pos": "98", "end_pos": "98" } ] } ], "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": "P38754-1.97.97", "start_pos": 97, "end_pos": 97, "uniprot_canonical_ac": "P38754-1", "length": 138, "uniprot_id": "RL14B_YEAST", "protein_name": "Large ribosomal subunit protein eL14B", "refseq_ac": "NP_011862", "refseq_name": "60S ribosomal protein eL14 RPL14B", "gene_name": "RPL14B", "gene_names_uniprotkb": "RPL14B", "gene_names_refseq": "RPL14B", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38754", "url": "https://www.uniprot.org/uniprotkb/P38754" } ], "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": "P38754", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38754" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000993", "url": "https://www.yeastgenome.org/locus/S000000993", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38754", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38754", "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": "RTATVSKKWAAAGVCEKWAA", "down_seq": "SWAKKIAQRERRAALTDFER", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000993", "url": "https://www.yeastgenome.org/locus/S000000993" }, { "database": "iPTMnet", "id": "P38754", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38754" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser97" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "97", "end_pos": "97" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38754-1.98.98", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38754-1.98.98", "start_pos": 98, "end_pos": 98, "uniprot_canonical_ac": "P38754-1", "length": 138, "uniprot_id": "RL14B_YEAST", "protein_name": "Large ribosomal subunit protein eL14B", "refseq_ac": "NP_011862", "refseq_name": "60S ribosomal protein eL14 RPL14B", "gene_name": "RPL14B", "gene_names_uniprotkb": "RPL14B", "gene_names_refseq": "RPL14B", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38754", "url": "https://www.uniprot.org/uniprotkb/P38754" } ], "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": "P38754", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38754" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000993", "url": "https://www.yeastgenome.org/locus/S000000993", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38754", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38754", "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": "TATVSKKWAAAGVCEKWAAS", "down_seq": "WAKKIAQRERRAALTDFERF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000993", "url": "https://www.yeastgenome.org/locus/S000000993" }, { "database": "iPTMnet", "id": "P38754", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38754" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser98" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "97", "end_pos": "97" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38754-1.97.97", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38756-1.259.259", "start_pos": 259, "end_pos": 259, "uniprot_canonical_ac": "P38756-1", "length": 429, "uniprot_id": "TCD1_YEAST", "protein_name": "tRNA threonylcarbamoyladenosine dehydratase 1", "refseq_ac": "NP_011866", "refseq_name": "tRNA threonylcarbamoyladenosine dehydratase", "gene_name": "TCD1", "gene_names_uniprotkb": "TCD1", "gene_names_refseq": "TCD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38756", "url": "https://www.uniprot.org/uniprotkb/P38756" } ], "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": "P38756", "url": "https://www.uniprot.org/uniprotkb/P38756" }, { "database": "iPTMnet", "id": "P38756", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38756" } ], "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": "P38756", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38756" } ], "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": "P38756", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38756" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38756", "url": "https://www.uniprot.org/uniprotkb/P38756", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38756", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38756", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000001045", "url": "https://www.yeastgenome.org/locus/S000001045", "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": "TGISVVFSNEMLDPRRDDIL", "down_seq": "PIDCEHRAINAVRDEALRHL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38756", "url": "https://www.uniprot.org/uniprotkb/P38756" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "P38756", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38756" }, { "database": "SGD", "id": "S000001045", "url": "https://www.yeastgenome.org/locus/S000001045" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser259" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "259", "end_pos": "259" } ] } ], "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": "P38760-1.13.13", "start_pos": 13, "end_pos": 13, "uniprot_canonical_ac": "P38760-1", "length": 659, "uniprot_id": "MIP6_YEAST", "protein_name": "RNA-binding protein MIP6", "refseq_ac": "NP_011879", "refseq_name": "Mip6p", "gene_name": "MIP6", "gene_names_uniprotkb": "MIP6", "gene_names_refseq": "MIP6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38760", "url": "https://www.uniprot.org/uniprotkb/P38760" } ], "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": "P38760", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38760" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001057", "url": "https://www.yeastgenome.org/locus/S000001057", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38760", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38760", "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": "MPNSHGNVLNNI", "down_seq": "LNSKQNPRSISKSCPNDKDA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001057", "url": "https://www.yeastgenome.org/locus/S000001057" }, { "database": "iPTMnet", "id": "P38760", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38760" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser13" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "4", "end_pos": "4" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38760-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38760-1.16.16", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38760-1.16.16", "start_pos": 16, "end_pos": 16, "uniprot_canonical_ac": "P38760-1", "length": 659, "uniprot_id": "MIP6_YEAST", "protein_name": "RNA-binding protein MIP6", "refseq_ac": "NP_011879", "refseq_name": "Mip6p", "gene_name": "MIP6", "gene_names_uniprotkb": "MIP6", "gene_names_refseq": "MIP6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38760", "url": "https://www.uniprot.org/uniprotkb/P38760" } ], "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": "P38760", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38760" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001057", "url": "https://www.yeastgenome.org/locus/S000001057", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38760", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38760", "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": "MPNSHGNVLNNISLN", "down_seq": "KQNPRSISKSCPNDKDARQK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001057", "url": "https://www.yeastgenome.org/locus/S000001057" }, { "database": "iPTMnet", "id": "P38760", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38760" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser16" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "4", "end_pos": "4" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38760-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38760-1.13.13", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38760-1.4.4", "start_pos": 4, "end_pos": 4, "uniprot_canonical_ac": "P38760-1", "length": 659, "uniprot_id": "MIP6_YEAST", "protein_name": "RNA-binding protein MIP6", "refseq_ac": "NP_011879", "refseq_name": "Mip6p", "gene_name": "MIP6", "gene_names_uniprotkb": "MIP6", "gene_names_refseq": "MIP6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38760", "url": "https://www.uniprot.org/uniprotkb/P38760" } ], "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": "P38760", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38760" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001057", "url": "https://www.yeastgenome.org/locus/S000001057", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38760", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38760", "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": "MPN", "down_seq": "HGNVLNNISLNSKQNPRSIS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001057", "url": "https://www.yeastgenome.org/locus/S000001057" }, { "database": "iPTMnet", "id": "P38760", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38760" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser4" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "4", "end_pos": "4" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "upstream", "id": "P38760-1.13.13", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38760-1.16.16", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38767-1.159.159", "start_pos": 159, "end_pos": 159, "uniprot_canonical_ac": "P38767-1", "length": 581, "uniprot_id": "ERC1_YEAST", "protein_name": "Ethionine resistance-conferring protein 1", "refseq_ac": "NP_011897", "refseq_name": "Erc1p", "gene_name": "ERC1", "gene_names_uniprotkb": "ERC1", "gene_names_refseq": "ERC1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38767", "url": "https://www.uniprot.org/uniprotkb/P38767" } ], "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": "P38767", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38767" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001074", "url": "https://www.yeastgenome.org/locus/S000001074", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38767", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38767", "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": "RPAEIANTWESAIESGQKIS", "down_seq": "TFKRETQVITMNALPLIFTF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001074", "url": "https://www.yeastgenome.org/locus/S000001074" }, { "database": "iPTMnet", "id": "P38767", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38767" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr159" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "159", "end_pos": "159" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38767-1.160.160", "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": "P38767-1.160.160", "start_pos": 160, "end_pos": 160, "uniprot_canonical_ac": "P38767-1", "length": 581, "uniprot_id": "ERC1_YEAST", "protein_name": "Ethionine resistance-conferring protein 1", "refseq_ac": "NP_011897", "refseq_name": "Erc1p", "gene_name": "ERC1", "gene_names_uniprotkb": "ERC1", "gene_names_refseq": "ERC1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38767", "url": "https://www.uniprot.org/uniprotkb/P38767" } ], "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": "P38767", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38767" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001074", "url": "https://www.yeastgenome.org/locus/S000001074", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38767", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38767", "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": "PAEIANTWESAIESGQKIST", "down_seq": "FKRETQVITMNALPLIFTFI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001074", "url": "https://www.yeastgenome.org/locus/S000001074" }, { "database": "iPTMnet", "id": "P38767", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38767" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr160" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "159", "end_pos": "159" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38767-1.159.159", "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": "P38767-1.72.72", "start_pos": 72, "end_pos": 72, "uniprot_canonical_ac": "P38767-1", "length": 581, "uniprot_id": "ERC1_YEAST", "protein_name": "Ethionine resistance-conferring protein 1", "refseq_ac": "NP_011897", "refseq_name": "Erc1p", "gene_name": "ERC1", "gene_names_uniprotkb": "ERC1", "gene_names_refseq": "ERC1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38767", "url": "https://www.uniprot.org/uniprotkb/P38767" } ], "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": "P38767", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38767" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001074", "url": "https://www.yeastgenome.org/locus/S000001074", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38767", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38767", "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": "EEEPSYTGNDDETEREGEYH", "down_seq": "LLDANNSRTLQQEAWQQGYD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001074", "url": "https://www.yeastgenome.org/locus/S000001074" }, { "database": "iPTMnet", "id": "P38767", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38767" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser72" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "159", "end_pos": "159" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "P38767-1.79.79", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38767-1.79.79", "start_pos": 79, "end_pos": 79, "uniprot_canonical_ac": "P38767-1", "length": 581, "uniprot_id": "ERC1_YEAST", "protein_name": "Ethionine resistance-conferring protein 1", "refseq_ac": "NP_011897", "refseq_name": "Erc1p", "gene_name": "ERC1", "gene_names_uniprotkb": "ERC1", "gene_names_refseq": "ERC1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38767", "url": "https://www.uniprot.org/uniprotkb/P38767" } ], "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": "P38767", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38767" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001074", "url": "https://www.yeastgenome.org/locus/S000001074", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38767", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38767", "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": "GNDDETEREGEYHSLLDANN", "down_seq": "RTLQQEAWQQGYDSHDRKRL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001074", "url": "https://www.yeastgenome.org/locus/S000001074" }, { "database": "iPTMnet", "id": "P38767", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38767" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser79" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "159", "end_pos": "159" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38767-1.72.72", "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": "P38769-1.592.592", "start_pos": 592, "end_pos": 592, "uniprot_canonical_ac": "P38769-1", "length": 630, "uniprot_id": "NEL1_YEAST", "protein_name": "GTPase-activating protein NEL1", "refseq_ac": "NP_011900", "refseq_name": "GTPase-activating protein NEL1", "gene_name": "NEL1", "gene_names_uniprotkb": "NEL1", "gene_names_refseq": "NEL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38769", "url": "https://www.uniprot.org/uniprotkb/P38769" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Sec23 homolog Nel1 is a novel GTPase-activating protein for Sar1 but does not function as a subunit of the coat protein complex II (COPII) coat.", "journal": "The Journal of biological chemistry", "date": "2014-08-01", "authors": "Kodera Chie, Yorimitsu Tomohiro, Sato Ken", "evidence": [ { "database": "UniProtKB", "id": "P38769", "url": "https://www.uniprot.org/uniprotkb/P38769" } ], "reference": [ { "type": "PubMed", "id": "24947508", "url": "https://glygen.org/publication/PubMed/24947508" } ] } ], "crossref": [ { "id": "P38769", "url": "https://www.uniprot.org/uniprotkb/P38769", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "24947508", "url": "https://glygen.org/publication/PubMed/24947508", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "DLQRFPQPLYVETKTGGSQD", "down_seq": "FLKSKIIPLDITDKETLGTE", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "Abolishes the GAP activity.", "evidence": [ { "database": "UniProtKB", "id": "P38769", "url": "https://www.uniprot.org/uniprotkb/P38769" }, { "database": "PubMed", "id": "24947508", "url": "https://glygen.org/publication/PubMed/24947508" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "592", "end_pos": "592" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "476", "end_pos": "476" } ] } ], "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": "P38769-1.476.476", "start_pos": 476, "end_pos": 476, "uniprot_canonical_ac": "P38769-1", "length": 630, "uniprot_id": "NEL1_YEAST", "protein_name": "GTPase-activating protein NEL1", "refseq_ac": "NP_011900", "refseq_name": "GTPase-activating protein NEL1", "gene_name": "NEL1", "gene_names_uniprotkb": "NEL1", "gene_names_refseq": "NEL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38769", "url": "https://www.uniprot.org/uniprotkb/P38769" } ], "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": "P38769", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38769" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P38769", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38769", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001077", "url": "https://www.yeastgenome.org/locus/S000001077", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IRGKDVDMVNLIQWCYHIYR", "down_seq": "PILSVRNTSPDERYLFLHRI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38769", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38769" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001077", "url": "https://www.yeastgenome.org/locus/S000001077" } ], "site_lbl": "Ser476" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "592", "end_pos": "592" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "476", "end_pos": "476" } ] } ], "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": "P38771-1.123.123", "start_pos": 123, "end_pos": 123, "uniprot_canonical_ac": "P38771-1", "length": 230, "uniprot_id": "RRF1_YEAST", "protein_name": "Ribosome-recycling factor, mitochondrial", "refseq_ac": "NP_011903", "refseq_name": "Rrf1p", "gene_name": "RRF1", "gene_names_uniprotkb": "RRF1; FIL1; KIM4", "gene_names_refseq": "FIL1; KIM4; RRF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38771", "url": "https://www.uniprot.org/uniprotkb/P38771" } ], "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": "P38771", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38771" }, { "database": "O-GlcNAc Atlas", "id": "P38771", "url": "https://oglcnac.org/atlas/detail/P38771" } ], "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": "P38771", "url": "https://oglcnac.org/atlas/detail/P38771", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KGKNALLITVFDPKDVKTVI", "down_seq": "GVLAANLNLTPERVPNNDLQ", "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": "Ser123", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38771", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38771" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "133", "end_pos": "133" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "24", "end_pos": "24" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "upstream", "id": "P38771-1.133.133", "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": "P38771-1.133.133", "start_pos": 133, "end_pos": 133, "uniprot_canonical_ac": "P38771-1", "length": 230, "uniprot_id": "RRF1_YEAST", "protein_name": "Ribosome-recycling factor, mitochondrial", "refseq_ac": "NP_011903", "refseq_name": "Rrf1p", "gene_name": "RRF1", "gene_names_uniprotkb": "RRF1; FIL1; KIM4", "gene_names_refseq": "FIL1; KIM4; RRF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38771", "url": "https://www.uniprot.org/uniprotkb/P38771" } ], "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": "P38771", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38771" }, { "database": "O-GlcNAc Atlas", "id": "P38771", "url": "https://oglcnac.org/atlas/detail/P38771" } ], "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": "P38771", "url": "https://oglcnac.org/atlas/detail/P38771", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "FDPKDVKTVISGVLAANLNL", "down_seq": "PERVPNNDLQLKVSLPPPTT", "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": "Thr133", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38771", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38771" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "133", "end_pos": "133" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "24", "end_pos": "24" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38771-1.123.123", "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": "P38771-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "P38771-1", "length": 230, "uniprot_id": "RRF1_YEAST", "protein_name": "Ribosome-recycling factor, mitochondrial", "refseq_ac": "NP_011903", "refseq_name": "Rrf1p", "gene_name": "RRF1", "gene_names_uniprotkb": "RRF1; FIL1; KIM4", "gene_names_refseq": "FIL1; KIM4; RRF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38771", "url": "https://www.uniprot.org/uniprotkb/P38771" } ], "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": "P38771", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38771" }, { "database": "O-GlcNAc Atlas", "id": "P38771", "url": "https://oglcnac.org/atlas/detail/P38771" } ], "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": "P38771", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38771", "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": "P38771", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38771" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "133", "end_pos": "133" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "24", "end_pos": "24" } ] } ], "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": "P38771-1.24.24", "start_pos": 24, "end_pos": 24, "uniprot_canonical_ac": "P38771-1", "length": 230, "uniprot_id": "RRF1_YEAST", "protein_name": "Ribosome-recycling factor, mitochondrial", "refseq_ac": "NP_011903", "refseq_name": "Rrf1p", "gene_name": "RRF1", "gene_names_uniprotkb": "RRF1; FIL1; KIM4", "gene_names_refseq": "FIL1; KIM4; RRF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38771", "url": "https://www.uniprot.org/uniprotkb/P38771" } ], "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": "P38771", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38771" } ], "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": "P38771", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38771" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001080", "url": "https://www.yeastgenome.org/locus/S000001080", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38771", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38771", "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": "TTARLNCRPVTVPRLFNRSF", "down_seq": "QSFIILKKKSSTPTEKVEED", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001080", "url": "https://www.yeastgenome.org/locus/S000001080" }, { "database": "iPTMnet", "id": "P38771", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38771" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser24" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "133", "end_pos": "133" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "24", "end_pos": "24" } ] } ], "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": "P38772-1.215.215", "start_pos": 215, "end_pos": 215, "uniprot_canonical_ac": "P38772-1", "length": 366, "uniprot_id": "BCD1_YEAST", "protein_name": "Box C/D snoRNA protein 1", "refseq_ac": "NP_011906", "refseq_name": "Bcd1p", "gene_name": "BCD1", "gene_names_uniprotkb": "BCD1", "gene_names_refseq": "BCD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38772", "url": "https://www.uniprot.org/uniprotkb/P38772" } ], "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": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772" } ], "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": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001082", "url": "https://www.yeastgenome.org/locus/S000001082", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772", "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": "QGMGKNVFQKCCEFYRLAGT", "down_seq": "SCIEGEDGSETKEERTQILQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001082", "url": "https://www.yeastgenome.org/locus/S000001082" }, { "database": "iPTMnet", "id": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser215" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "215", "end_pos": "215" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38772-1.216.216", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38772-1.216.216", "start_pos": 216, "end_pos": 216, "uniprot_canonical_ac": "P38772-1", "length": 366, "uniprot_id": "BCD1_YEAST", "protein_name": "Box C/D snoRNA protein 1", "refseq_ac": "NP_011906", "refseq_name": "Bcd1p", "gene_name": "BCD1", "gene_names_uniprotkb": "BCD1", "gene_names_refseq": "BCD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38772", "url": "https://www.uniprot.org/uniprotkb/P38772" } ], "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": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772" } ], "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": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772" } ], "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": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001082", "url": "https://www.yeastgenome.org/locus/S000001082", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772", "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": "GMGKNVFQKCCEFYRLAGTS", "down_seq": "CIEGEDGSETKEERTQILQK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001082", "url": "https://www.yeastgenome.org/locus/S000001082" }, { "database": "iPTMnet", "id": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772" }, { "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": "Ser216" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "215", "end_pos": "215" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38772-1.215.215", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38772-1.26.26", "start_pos": 26, "end_pos": 26, "uniprot_canonical_ac": "P38772-1", "length": 366, "uniprot_id": "BCD1_YEAST", "protein_name": "Box C/D snoRNA protein 1", "refseq_ac": "NP_011906", "refseq_name": "Bcd1p", "gene_name": "BCD1", "gene_names_uniprotkb": "BCD1", "gene_names_refseq": "BCD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38772", "url": "https://www.uniprot.org/uniprotkb/P38772" } ], "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": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772", "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": "GVCGIKEFKYKCPRCLVQTC", "down_seq": "LECSKKHKTRDNCSGQTHDP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Ser26" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "215", "end_pos": "215" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P38772-1.30.30", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38772-1.30.30", "start_pos": 30, "end_pos": 30, "uniprot_canonical_ac": "P38772-1", "length": 366, "uniprot_id": "BCD1_YEAST", "protein_name": "Box C/D snoRNA protein 1", "refseq_ac": "NP_011906", "refseq_name": "Bcd1p", "gene_name": "BCD1", "gene_names_uniprotkb": "BCD1", "gene_names_refseq": "BCD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38772", "url": "https://www.uniprot.org/uniprotkb/P38772" } ], "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": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772", "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": "IKEFKYKCPRCLVQTCSLEC", "down_seq": "KKHKTRDNCSGQTHDPKEYI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Ser30" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "215", "end_pos": "215" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38772-1.26.26", "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": "P38772-1.312.312", "start_pos": 312, "end_pos": 312, "uniprot_canonical_ac": "P38772-1", "length": 366, "uniprot_id": "BCD1_YEAST", "protein_name": "Box C/D snoRNA protein 1", "refseq_ac": "NP_011906", "refseq_name": "Bcd1p", "gene_name": "BCD1", "gene_names_uniprotkb": "BCD1", "gene_names_refseq": "BCD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38772", "url": "https://www.uniprot.org/uniprotkb/P38772" } ], "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": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001082", "url": "https://www.yeastgenome.org/locus/S000001082", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772", "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": "DLPEGYEVLHQEPRPLEHTS", "down_seq": "LNKFIDNAREEEDAEEDSQP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001082", "url": "https://www.yeastgenome.org/locus/S000001082" }, { "database": "iPTMnet", "id": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr312" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "215", "end_pos": "215" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "upstream", "id": "P38772-1.330.330", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38772-1.330.330", "start_pos": 330, "end_pos": 330, "uniprot_canonical_ac": "P38772-1", "length": 366, "uniprot_id": "BCD1_YEAST", "protein_name": "Box C/D snoRNA protein 1", "refseq_ac": "NP_011906", "refseq_name": "Bcd1p", "gene_name": "BCD1", "gene_names_uniprotkb": "BCD1", "gene_names_refseq": "BCD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38772", "url": "https://www.uniprot.org/uniprotkb/P38772" } ], "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": "P38772", "url": "https://www.uniprot.org/uniprotkb/P38772" }, { "database": "iPTMnet", "id": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "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": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772" } ], "reference": [ { "type": "PubMed", "id": "20190278", "url": "https://glygen.org/publication/PubMed/20190278" } ] }, { "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": "P38772", "url": "https://www.uniprot.org/uniprotkb/P38772" }, { "database": "iPTMnet", "id": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772" } ], "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": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20190278", "url": "https://glygen.org/publication/PubMed/20190278", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38772", "url": "https://www.uniprot.org/uniprotkb/P38772", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001082", "url": "https://www.yeastgenome.org/locus/S000001082", "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": "TSTLNKFIDNAREEEDAEED", "down_seq": "QPTEEPVQKETQDASDSDSD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P38110-1", "kinase_gene_name": "TEL1", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "20190278", "url": "https://glygen.org/publication/PubMed/20190278" } ], "site_lbl": "Ser330" }, { "kinase_uniprot_canonical_ac": "P38111-1", "kinase_gene_name": "MEC1", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "20190278", "url": "https://glygen.org/publication/PubMed/20190278" } ], "site_lbl": "Ser330" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38772", "url": "https://www.uniprot.org/uniprotkb/P38772" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001082", "url": "https://www.yeastgenome.org/locus/S000001082" }, { "database": "iPTMnet", "id": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772" }, { "database": "PubMed", "id": "20190278", "url": "https://glygen.org/publication/PubMed/20190278" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser330" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "215", "end_pos": "215" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38772-1.312.312", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_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": "P38772-1.51.51", "start_pos": 51, "end_pos": 51, "uniprot_canonical_ac": "P38772-1", "length": 366, "uniprot_id": "BCD1_YEAST", "protein_name": "Box C/D snoRNA protein 1", "refseq_ac": "NP_011906", "refseq_name": "Bcd1p", "gene_name": "BCD1", "gene_names_uniprotkb": "BCD1", "gene_names_refseq": "BCD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38772", "url": "https://www.uniprot.org/uniprotkb/P38772" } ], "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": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001082", "url": "https://www.yeastgenome.org/locus/S000001082", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772", "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": "KKHKTRDNCSGQTHDPKEYI", "down_seq": "SEALKQADDDKHERNAYVQR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001082", "url": "https://www.yeastgenome.org/locus/S000001082" }, { "database": "iPTMnet", "id": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser51" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "215", "end_pos": "215" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38772-1.52.52", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38772-1.52.52", "start_pos": 52, "end_pos": 52, "uniprot_canonical_ac": "P38772-1", "length": 366, "uniprot_id": "BCD1_YEAST", "protein_name": "Box C/D snoRNA protein 1", "refseq_ac": "NP_011906", "refseq_name": "Bcd1p", "gene_name": "BCD1", "gene_names_uniprotkb": "BCD1", "gene_names_refseq": "BCD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38772", "url": "https://www.uniprot.org/uniprotkb/P38772" } ], "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": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001082", "url": "https://www.yeastgenome.org/locus/S000001082", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772", "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": "KHKTRDNCSGQTHDPKEYIS", "down_seq": "EALKQADDDKHERNAYVQRD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001082", "url": "https://www.yeastgenome.org/locus/S000001082" }, { "database": "iPTMnet", "id": "P38772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38772" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser52" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "215", "end_pos": "215" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38772-1.51.51", "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": "P38776-1.38.38", "start_pos": 38, "end_pos": 38, "uniprot_canonical_ac": "P38776-1", "length": 514, "uniprot_id": "YHK8_YEAST", "protein_name": "Probable drug/proton antiporter YHK8", "refseq_ac": "NP_011914", "refseq_name": "Yhk8p", "gene_name": "YHK8", "gene_names_uniprotkb": "YHK8", "gene_names_refseq": "YHK8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38776", "url": "https://www.uniprot.org/uniprotkb/P38776" } ], "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": "P38776", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38776" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001090", "url": "https://www.yeastgenome.org/locus/S000001090", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38776", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38776", "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": "TEEEHCSINSDKAAKLDLEL", "down_seq": "SERKNDGKQSHEVTFNEDIA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001090", "url": "https://www.yeastgenome.org/locus/S000001090" }, { "database": "iPTMnet", "id": "P38776", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38776" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr38" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "38", "end_pos": "38" } ] } ], "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": "P38784-1.178.178", "start_pos": 178, "end_pos": 178, "uniprot_canonical_ac": "P38784-1", "length": 181, "uniprot_id": "VMA22_YEAST", "protein_name": "Vacuolar ATPase assembly protein VMA22", "refseq_ac": "NP_011927", "refseq_name": "Vma22p", "gene_name": "VMA22", "gene_names_uniprotkb": "VMA22", "gene_names_refseq": "CEV1; VMA22; VPH6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38784", "url": "https://www.uniprot.org/uniprotkb/P38784" } ], "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": "P38784", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38784" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001102", "url": "https://www.yeastgenome.org/locus/S000001102", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38784", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38784", "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": "PLIAQLINYKNEILTLVETL", "down_seq": "EQE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001102", "url": "https://www.yeastgenome.org/locus/S000001102" }, { "database": "iPTMnet", "id": "P38784", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38784" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser178" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "178", "end_pos": "178" } ] } ], "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": "P38787-1.311.311", "start_pos": 311, "end_pos": 311, "uniprot_canonical_ac": "P38787-1", "length": 379, "uniprot_id": "PANE_YEAST", "protein_name": "2-dehydropantoate 2-reductase", "refseq_ac": "NP_011930", "refseq_name": "2-dehydropantoate 2-reductase PAN5", "gene_name": "PAN5", "gene_names_uniprotkb": "PAN5", "gene_names_refseq": "PAN5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38787", "url": "https://www.uniprot.org/uniprotkb/P38787" } ], "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": "P38787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38787" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001105", "url": "https://www.yeastgenome.org/locus/S000001105", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38787", "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": "AVLTTDNMVSEVTRIGCDIN", "down_seq": "RNSSSMRQDTLFLRDIEIEY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001105", "url": "https://www.yeastgenome.org/locus/S000001105" }, { "database": "iPTMnet", "id": "P38787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38787" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser311" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "311", "end_pos": "311" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "64", "end_pos": "64" } ] } ], "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": "P38787-1.371.371", "start_pos": 371, "end_pos": 371, "uniprot_canonical_ac": "P38787-1", "length": 379, "uniprot_id": "PANE_YEAST", "protein_name": "2-dehydropantoate 2-reductase", "refseq_ac": "NP_011930", "refseq_name": "2-dehydropantoate 2-reductase PAN5", "gene_name": "PAN5", "gene_names_uniprotkb": "PAN5", "gene_names_refseq": "PAN5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38787", "url": "https://www.uniprot.org/uniprotkb/P38787" } ], "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": "P38787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38787" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001105", "url": "https://www.yeastgenome.org/locus/S000001105", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38787", "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": "KVNKTIGELATMRLALNRSR", "down_seq": "INGDWRKD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001105", "url": "https://www.yeastgenome.org/locus/S000001105" }, { "database": "iPTMnet", "id": "P38787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38787" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser371" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "311", "end_pos": "311" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "64", "end_pos": "64" } ] } ], "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": "P38787-1.64.64", "start_pos": 64, "end_pos": 64, "uniprot_canonical_ac": "P38787-1", "length": 379, "uniprot_id": "PANE_YEAST", "protein_name": "2-dehydropantoate 2-reductase", "refseq_ac": "NP_011930", "refseq_name": "2-dehydropantoate 2-reductase PAN5", "gene_name": "PAN5", "gene_names_uniprotkb": "PAN5", "gene_names_refseq": "PAN5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38787", "url": "https://www.uniprot.org/uniprotkb/P38787" } ], "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": "P38787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38787" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001105", "url": "https://www.yeastgenome.org/locus/S000001105", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38787", "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": "AQFQKTNGNNISIRKLYLEG", "down_seq": "PIFSYPVEKCECPETFSKKP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001105", "url": "https://www.yeastgenome.org/locus/S000001105" }, { "database": "iPTMnet", "id": "P38787", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38787" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser64" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "311", "end_pos": "311" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "64", "end_pos": "64" } ] } ], "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": "P38795-1.293.293", "start_pos": 293, "end_pos": 293, "uniprot_canonical_ac": "P38795-1", "length": 714, "uniprot_id": "NADE_YEAST", "protein_name": "Glutamine-dependent NAD(+) synthetase", "refseq_ac": "NP_011941", "refseq_name": "glutamine-dependent NAD(+) synthetase", "gene_name": "QNS1", "gene_names_uniprotkb": "QNS1", "gene_names_refseq": "QNS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38795", "url": "https://www.uniprot.org/uniprotkb/P38795" } ], "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": "P38795", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38795" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001116", "url": "https://www.yeastgenome.org/locus/S000001116", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38795", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38795", "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": "VDLEEVRSYRAAVMSRGLQA", "down_seq": "LAEIKFKRIDIPVELALMTS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001116", "url": "https://www.yeastgenome.org/locus/S000001116" }, { "database": "iPTMnet", "id": "P38795", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38795" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser293" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "293", "end_pos": "293" }, { "start_pos": "409", "end_pos": "409" }, { "start_pos": "660", "end_pos": "660" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "712", "end_pos": "712" } ] } ], "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": "P38795-1.409.409", "start_pos": 409, "end_pos": 409, "uniprot_canonical_ac": "P38795-1", "length": 714, "uniprot_id": "NADE_YEAST", "protein_name": "Glutamine-dependent NAD(+) synthetase", "refseq_ac": "NP_011941", "refseq_name": "glutamine-dependent NAD(+) synthetase", "gene_name": "QNS1", "gene_names_uniprotkb": "QNS1", "gene_names_refseq": "QNS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38795", "url": "https://www.uniprot.org/uniprotkb/P38795" } ], "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": "P38795", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38795" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001116", "url": "https://www.yeastgenome.org/locus/S000001116", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38795", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38795", "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": "EQVIKDVRKITRSGDDWIPD", "down_seq": "PQDLASKIFHSCFMGTENSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001116", "url": "https://www.yeastgenome.org/locus/S000001116" }, { "database": "iPTMnet", "id": "P38795", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38795" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser409" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "293", "end_pos": "293" }, { "start_pos": "409", "end_pos": "409" }, { "start_pos": "660", "end_pos": "660" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "712", "end_pos": "712" } ] } ], "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": "P38795-1.660.660", "start_pos": 660, "end_pos": 660, "uniprot_canonical_ac": "P38795-1", "length": 714, "uniprot_id": "NADE_YEAST", "protein_name": "Glutamine-dependent NAD(+) synthetase", "refseq_ac": "NP_011941", "refseq_name": "glutamine-dependent NAD(+) synthetase", "gene_name": "QNS1", "gene_names_uniprotkb": "QNS1", "gene_names_refseq": "QNS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38795", "url": "https://www.uniprot.org/uniprotkb/P38795" } ], "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": "P38795", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38795" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001116", "url": "https://www.yeastgenome.org/locus/S000001116", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38795", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38795", "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": "EKVKRFFFFYAINRHKQTVL", "down_seq": "PSYHAEQYSPEDNRFDLRPF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001116", "url": "https://www.yeastgenome.org/locus/S000001116" }, { "database": "iPTMnet", "id": "P38795", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38795" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr660" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "293", "end_pos": "293" }, { "start_pos": "409", "end_pos": "409" }, { "start_pos": "660", "end_pos": "660" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "712", "end_pos": "712" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "upstream", "id": "P38795-1.669.669", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38795-1.669.669", "start_pos": 669, "end_pos": 669, "uniprot_canonical_ac": "P38795-1", "length": 714, "uniprot_id": "NADE_YEAST", "protein_name": "Glutamine-dependent NAD(+) synthetase", "refseq_ac": "NP_011941", "refseq_name": "glutamine-dependent NAD(+) synthetase", "gene_name": "QNS1", "gene_names_uniprotkb": "QNS1", "gene_names_refseq": "QNS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38795", "url": "https://www.uniprot.org/uniprotkb/P38795" } ], "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": "P38795", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38795" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001116", "url": "https://www.yeastgenome.org/locus/S000001116", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38795", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38795", "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": "YAINRHKQTVLTPSYHAEQY", "down_seq": "PEDNRFDLRPFLINPRFPWA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001116", "url": "https://www.yeastgenome.org/locus/S000001116" }, { "database": "iPTMnet", "id": "P38795", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38795" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser669" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "293", "end_pos": "293" }, { "start_pos": "409", "end_pos": "409" }, { "start_pos": "660", "end_pos": "660" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "712", "end_pos": "712" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38795-1.660.660", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38795-1.712.712", "start_pos": 712, "end_pos": 712, "uniprot_canonical_ac": "P38795-1", "length": 714, "uniprot_id": "NADE_YEAST", "protein_name": "Glutamine-dependent NAD(+) synthetase", "refseq_ac": "NP_011941", "refseq_name": "glutamine-dependent NAD(+) synthetase", "gene_name": "QNS1", "gene_names_uniprotkb": "QNS1", "gene_names_refseq": "QNS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38795", "url": "https://www.uniprot.org/uniprotkb/P38795" } ], "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": "P38795", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38795" } ], "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": "P38795", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38795" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001116", "url": "https://www.yeastgenome.org/locus/S000001116", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38795", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38795", "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": "KIDEVVEQCEAHKGSTLDIM", "down_seq": "ID", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001116", "url": "https://www.yeastgenome.org/locus/S000001116" }, { "database": "iPTMnet", "id": "P38795", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38795" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser712" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "293", "end_pos": "293" }, { "start_pos": "409", "end_pos": "409" }, { "start_pos": "660", "end_pos": "660" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "712", "end_pos": "712" } ] } ], "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": "P38804-1.96.96", "start_pos": 96, "end_pos": 96, "uniprot_canonical_ac": "P38804-1", "length": 111, "uniprot_id": "SDO1L_YEAST", "protein_name": "Restriction of telomere capping protein 3", "refseq_ac": "NP_011955", "refseq_name": "Rtc3p", "gene_name": "RTC3", "gene_names_uniprotkb": "RTC3", "gene_names_refseq": "HGI1; RTC3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38804", "url": "https://www.uniprot.org/uniprotkb/P38804" } ], "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": "P38804", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38804" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001129", "url": "https://www.yeastgenome.org/locus/S000001129", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38804", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38804", "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": "KKIEEVIDLILRNGKPNSTT", "down_seq": "SLKTKGGNAGTKAYN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001129", "url": "https://www.yeastgenome.org/locus/S000001129" }, { "database": "iPTMnet", "id": "P38804", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38804" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser96" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38804-1.97.97", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38804-1.97.97", "start_pos": 97, "end_pos": 97, "uniprot_canonical_ac": "P38804-1", "length": 111, "uniprot_id": "SDO1L_YEAST", "protein_name": "Restriction of telomere capping protein 3", "refseq_ac": "NP_011955", "refseq_name": "Rtc3p", "gene_name": "RTC3", "gene_names_uniprotkb": "RTC3", "gene_names_refseq": "HGI1; RTC3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38804", "url": "https://www.uniprot.org/uniprotkb/P38804" } ], "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": "P38804", "url": "https://www.uniprot.org/uniprotkb/P38804" }, { "database": "iPTMnet", "id": "P38804", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38804" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "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": "P38804", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38804" } ], "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": "P38804", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38804" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38804", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38804", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001129", "url": "https://www.yeastgenome.org/locus/S000001129", "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": "KIEEVIDLILRNGKPNSTTS", "down_seq": "LKTKGGNAGTKAYN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38804", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38804" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001129", "url": "https://www.yeastgenome.org/locus/S000001129" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser97" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38804-1.96.96", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38809-1.237.237", "start_pos": 237, "end_pos": 237, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38809" }, { "database": "O-GlcNAc Atlas", "id": "P38809", "url": "https://oglcnac.org/atlas/detail/P38809" } ], "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": "P38809", "url": "https://oglcnac.org/atlas/detail/P38809", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "NKANSSTTTLDAIKPNSKNI", "down_seq": "QFDSKMKTELVHGPITMGLG", "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": "Thr237", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38809", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38809" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38809-1.221.221", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38809-1.222.222", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38809-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38809-1.224.224", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38809-1.225.225", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38809-1.241.241", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38809-1.245.245", "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": "P38809-1.241.241", "start_pos": 241, "end_pos": 241, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38809" }, { "database": "O-GlcNAc Atlas", "id": "P38809", "url": "https://oglcnac.org/atlas/detail/P38809" } ], "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": "P38809", "url": "https://oglcnac.org/atlas/detail/P38809", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSTTTLDAIKPNSKNITQFD", "down_seq": "KMKTELVHGPITMGLGSTTF", "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": "Ser241", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38809", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38809" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38809-1.221.221", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P38809-1.222.222", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P38809-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38809-1.224.224", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38809-1.225.225", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38809-1.237.237", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38809-1.245.245", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38809-1.258.258", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38809-1.260.260", "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": "P38809-1.329.329", "start_pos": 329, "end_pos": 329, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38809" }, { "database": "O-GlcNAc Atlas", "id": "P38809", "url": "https://oglcnac.org/atlas/detail/P38809" } ], "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": "P38809", "url": "https://oglcnac.org/atlas/detail/P38809", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KLVKTHSGHLEQKDVDDNRT", "down_seq": "VPVTATQGSGHEDVVKKENT", "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": "P38809", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38809" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38809-1.313.313", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38809-1.315.315", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38809-1.335.335", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38809-1.338.338", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38809-1.349.349", "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": "P38809-1.338.338", "start_pos": 338, "end_pos": 338, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38809" }, { "database": "O-GlcNAc Atlas", "id": "P38809", "url": "https://oglcnac.org/atlas/detail/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "https://oglcnac.org/atlas/detail/P38809", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "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": "LEQKDVDDNRTSVPVTATQG", "down_seq": "GHEDVVKKENTGNKLLRRVK", "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": "Ser338", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38809", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38809" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "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": "Ser338" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38809-1.329.329", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38809-1.335.335", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38809-1.349.349", "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": "P38809-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38809" }, { "database": "O-GlcNAc Atlas", "id": "P38809", "url": "https://oglcnac.org/atlas/detail/P38809" } ], "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": "P38809", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38809", "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": "P38809", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38809" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "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": "P38809-1.106.106", "start_pos": 106, "end_pos": 106, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "SUMO is a pervasive regulator of meiosis.", "journal": "eLife", "date": "2021-01-27", "authors": "Bhagwat Nikhil R, Owens Shannon N, Ito Masaru, Boinapalli Jay V, Poa Philip, Ditzel Alexander, Kopparapu Srujan, Mahalawat Meghan, Davies Owen Richard, Collins Sean R, Johnson Jeffrey R, Krogan Nevan J, Hunter Neil", "evidence": [ { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ] } ], "crossref": [ { "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "EKKRSSGSNSHQHNHHHHRR", "down_seq": "SHGHRDKDKQKSKSRTKVKP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "database": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ], "site_lbl": "Thr106" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38809-1.107.107", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38809-1.107.107", "start_pos": 107, "end_pos": 107, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "SUMO is a pervasive regulator of meiosis.", "journal": "eLife", "date": "2021-01-27", "authors": "Bhagwat Nikhil R, Owens Shannon N, Ito Masaru, Boinapalli Jay V, Poa Philip, Ditzel Alexander, Kopparapu Srujan, Mahalawat Meghan, Davies Owen Richard, Collins Sean R, Johnson Jeffrey R, Krogan Nevan J, Hunter Neil", "evidence": [ { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ] } ], "crossref": [ { "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KKRSSGSNSHQHNHHHHRRT", "down_seq": "HGHRDKDKQKSKSRTKVKPP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "database": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ], "site_lbl": "Ser107" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38809-1.106.106", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38809-1.145.145", "start_pos": 145, "end_pos": 145, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "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": "KPPKNVDTIDKMDVTGLFGG", "down_seq": "FHHDGPFDACTPQRNKNNKV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser145" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "upstream", "id": "P38809-1.156.156", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38809-1.156.156", "start_pos": 156, "end_pos": 156, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "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": "MDVTGLFGGSFHHDGPFDAC", "down_seq": "PQRNKNNKVAPVLAFPADGP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr156" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38809-1.145.145", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38809-1.188.188", "start_pos": 188, "end_pos": 188, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "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": "VLAFPADGPNNTVGGRTSKK", "down_seq": "TLDEVFGRETVDDDSETLNQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser188" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38809-1.189.189", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38809-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38809-1.205.205", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38809-1.189.189", "start_pos": 189, "end_pos": 189, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "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": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "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": "LAFPADGPNNTVGGRTSKKS", "down_seq": "LDEVFGRETVDDDSETLNQL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "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": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr189" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38809-1.188.188", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38809-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38809-1.205.205", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38809-1.203.203", "start_pos": 203, "end_pos": 203, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "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": "RTSKKSTLDEVFGRETVDDD", "down_seq": "ETLNQLQDRAYLFNKANSST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "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": "Ser203" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38809-1.188.188", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38809-1.189.189", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38809-1.205.205", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38809-1.221.221", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38809-1.222.222", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38809-1.223.223", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38809-1.205.205", "start_pos": 205, "end_pos": 205, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "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": "SKKSTLDEVFGRETVDDDSE", "down_seq": "LNQLQDRAYLFNKANSSTTT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr205" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38809-1.188.188", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38809-1.189.189", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38809-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38809-1.221.221", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38809-1.222.222", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38809-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38809-1.224.224", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38809-1.225.225", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38809-1.221.221", "start_pos": 221, "end_pos": 221, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "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": "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": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "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": "DDSETLNQLQDRAYLFNKAN", "down_seq": "STTTLDAIKPNSKNITQFDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "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": "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": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser221" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38809-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38809-1.205.205", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38809-1.222.222", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38809-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38809-1.224.224", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38809-1.225.225", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38809-1.237.237", "categories": [ "glycosylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38809-1.241.241", "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": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38809-1.222.222", "start_pos": 222, "end_pos": 222, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "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": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "Phosphorylation of Pal2 by the protein kinases Kin1 and Kin2 modulates HAC1 mRNA splicing in the unfolded protein response in yeast.", "journal": "Science signaling", "date": "2021-05-25", "authors": "Ghosh Chandrima, Uppala Jagadeesh Kumar, Sathe Leena, Hammond Charlotte I, Anshu Ashish, Pokkuluri P Raj, Turk Benjamin E, Dey Madhusudan", "evidence": [ { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "34035143", "url": "https://glygen.org/publication/PubMed/34035143" } ] } ], "crossref": [ { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "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": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "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": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "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" ] }, { "id": "34035143", "url": "https://glygen.org/publication/PubMed/34035143", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DSETLNQLQDRAYLFNKANS", "down_seq": "TTTLDAIKPNSKNITQFDSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "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": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "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": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "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" }, { "database": "PubMed", "id": "34035143", "url": "https://glygen.org/publication/PubMed/34035143" } ], "site_lbl": "Ser222" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38809-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38809-1.205.205", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38809-1.221.221", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38809-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38809-1.224.224", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38809-1.225.225", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38809-1.237.237", "categories": [ "glycosylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38809-1.241.241", "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": 11 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38809-1.223.223", "start_pos": 223, "end_pos": 223, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "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": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "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": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SETLNQLQDRAYLFNKANSS", "down_seq": "TTLDAIKPNSKNITQFDSKM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "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": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Thr223" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38809-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P38809-1.205.205", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38809-1.221.221", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38809-1.222.222", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38809-1.224.224", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38809-1.225.225", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38809-1.237.237", "categories": [ "glycosylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38809-1.241.241", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38809-1.224.224", "start_pos": 224, "end_pos": 224, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "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": "ETLNQLQDRAYLFNKANSST", "down_seq": "TLDAIKPNSKNITQFDSKMK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "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": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr224" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38809-1.205.205", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38809-1.221.221", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38809-1.222.222", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38809-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38809-1.225.225", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38809-1.237.237", "categories": [ "glycosylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38809-1.241.241", "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38809-1.225.225", "start_pos": 225, "end_pos": 225, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "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": "TLNQLQDRAYLFNKANSSTT", "down_seq": "LDAIKPNSKNITQFDSKMKT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr225" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38809-1.205.205", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38809-1.221.221", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38809-1.222.222", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38809-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38809-1.224.224", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38809-1.237.237", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38809-1.241.241", "categories": [ "glycosylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38809-1.245.245", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38809-1.245.245", "start_pos": 245, "end_pos": 245, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "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": "TLDAIKPNSKNITQFDSKMK", "down_seq": "ELVHGPITMGLGSTTFLDGA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr245" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38809-1.225.225", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38809-1.237.237", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38809-1.241.241", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38809-1.258.258", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38809-1.260.260", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38809-1.258.258", "start_pos": 258, "end_pos": 258, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "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": "QFDSKMKTELVHGPITMGLG", "down_seq": "TTFLDGAPASSAAIEQDVIN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser258" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38809-1.241.241", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38809-1.245.245", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38809-1.260.260", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38809-1.25.25", "start_pos": 25, "end_pos": 25, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "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": "GRTIGGPQNGVNTVINPFRV", "down_seq": "PSEDRVSSRDETPRNYNNPF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "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": "Ser25" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38809-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38809-1.32.32", "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": "P38809-1.260.260", "start_pos": 260, "end_pos": 260, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "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": "DSKMKTELVHGPITMGLGST", "down_seq": "FLDGAPASSAAIEQDVINHA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr260" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38809-1.241.241", "categories": [ "glycosylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38809-1.245.245", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38809-1.258.258", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38809-1.27.27", "start_pos": 27, "end_pos": 27, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "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": "TIGGPQNGVNTVINPFRVSP", "down_seq": "EDRVSSRDETPRNYNNPFLN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser27" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38809-1.25.25", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38809-1.32.32", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38809-1.288.288", "start_pos": 288, "end_pos": 288, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "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": "SSAAIEQDVINHAQESRRKN", "down_seq": "IARKKSLPSRRHLQVNNNNL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "database": "SGD", "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser288" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P38809-1.294.294", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38809-1.297.297", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38809-1.294.294", "start_pos": 294, "end_pos": 294, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "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": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "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": "QDVINHAQESRRKNSIARKK", "down_seq": "LPSRRHLQVNNNNLKLVKTH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "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": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser294" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38809-1.288.288", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38809-1.297.297", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38809-1.313.313", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38809-1.297.297", "start_pos": 297, "end_pos": 297, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "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": "S", "start_aa": "S", "up_seq": "INHAQESRRKNSIARKKSLP", "down_seq": "RRHLQVNNNNLKLVKTHSGH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "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": "Ser297" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38809-1.288.288", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38809-1.294.294", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38809-1.313.313", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38809-1.315.315", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38809-1.313.313", "start_pos": 313, "end_pos": 313, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "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": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "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": "T", "start_aa": "T", "up_seq": "KSLPSRRHLQVNNNNLKLVK", "down_seq": "HSGHLEQKDVDDNRTSVPVT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "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": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "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": "Thr313" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38809-1.294.294", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38809-1.297.297", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38809-1.315.315", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38809-1.329.329", "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": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38809-1.315.315", "start_pos": 315, "end_pos": 315, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "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": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "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": "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": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "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": "LPSRRHLQVNNNNLKLVKTH", "down_seq": "GHLEQKDVDDNRTSVPVTAT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "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": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "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": "Ser315" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38809-1.297.297", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38809-1.313.313", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38809-1.329.329", "categories": [ "glycosylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38809-1.335.335", "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": 11 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38809-1.32.32", "start_pos": 32, "end_pos": 32, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "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": "QNGVNTVINPFRVSPSEDRV", "down_seq": "SRDETPRNYNNPFLNEDDTR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser32" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38809-1.25.25", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38809-1.27.27", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38809-1.335.335", "start_pos": 335, "end_pos": 335, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "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": "SGHLEQKDVDDNRTSVPVTA", "down_seq": "QGSGHEDVVKKENTGNKLLR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr335" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38809-1.315.315", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38809-1.329.329", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38809-1.338.338", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38809-1.349.349", "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": "P38809-1.349.349", "start_pos": 349, "end_pos": 349, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "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": "SVPVTATQGSGHEDVVKKEN", "down_seq": "GNKLLRRVKSLKTSKKH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr349" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38809-1.329.329", "categories": [ "glycosylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38809-1.335.335", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38809-1.338.338", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38809-1.359.359", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38809-1.359.359", "start_pos": 359, "end_pos": 359, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] } ], "crossref": [ { "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GHEDVVKKENTGNKLLRRVK", "down_seq": "LKTSKKH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "site_lbl": "Ser359" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38809-1.349.349", "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": "P38809-1.58.58", "start_pos": 58, "end_pos": 58, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "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": "PRNYNNPFLNEDDTRRAHNS", "down_seq": "VSNSRQERLPSYEEAAGTPK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "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": "Ser58" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P38809-1.62.62", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38809-1.69.69", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38809-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38809-1.76.76", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38809-1.62.62", "start_pos": 62, "end_pos": 62, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "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": "NNPFLNEDDTRRAHNSSVSN", "down_seq": "RQERLPSYEEAAGTPKQQAP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser62" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38809-1.58.58", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38809-1.69.69", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38809-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38809-1.76.76", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38809-1.69.69", "start_pos": 69, "end_pos": 69, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "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": "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": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "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": "DDTRRAHNSSVSNSRQERLP", "down_seq": "YEEAAGTPKQQAPYPKEKKR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "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": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "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": "Ser69" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38809-1.58.58", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38809-1.62.62", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38809-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38809-1.76.76", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38809-1.70.70", "start_pos": 70, "end_pos": 70, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "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": "DTRRAHNSSVSNSRQERLPS", "down_seq": "EEAAGTPKQQAPYPKEKKRS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Tyr70" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38809-1.58.58", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38809-1.62.62", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38809-1.69.69", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38809-1.76.76", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38809-1.76.76", "start_pos": 76, "end_pos": 76, "uniprot_canonical_ac": "P38809-1", "length": 366, "uniprot_id": "YHP7_YEAST", "protein_name": "Uncharacterized protein YHR097C", "refseq_ac": "", "refseq_name": "", "gene_name": "", "gene_names_uniprotkb": "", "gene_names_refseq": "", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" } ], "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": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "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": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809", "database": "iPTMnet", "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": "T", "start_aa": "T", "up_seq": "NSSVSNSRQERLPSYEEAAG", "down_seq": "PKQQAPYPKEKKRSSGSNSH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38809", "url": "https://www.uniprot.org/uniprotkb/P38809" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001139", "url": "https://www.yeastgenome.org/locus/S000001139" }, { "database": "iPTMnet", "id": "P38809", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38809" }, { "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": "Thr76" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "338", "end_pos": "338" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "260", "end_pos": "260" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38809-1.58.58", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38809-1.62.62", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38809-1.69.69", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38809-1.70.70", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38812-1.45.45", "start_pos": 45, "end_pos": 45, "uniprot_canonical_ac": "P38812-1", "length": 185, "uniprot_id": "GEP4_YEAST", "protein_name": "Phosphatidylglycerophosphatase GEP4, mitochondrial", "refseq_ac": "NP_011968", "refseq_name": "phosphatidylglycerophosphatase", "gene_name": "GEP4", "gene_names_uniprotkb": "GEP4", "gene_names_refseq": "GEP4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38812", "url": "https://www.uniprot.org/uniprotkb/P38812" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A mitochondrial phosphatase required for cardiolipin biosynthesis: the PGP phosphatase Gep4.", "journal": "The EMBO journal", "date": "2010-06-16", "authors": "Osman Christof, Haag Mathias, Wieland Felix T, Br\u00fcgger Britta, Langer Thomas", "evidence": [ { "database": "UniProtKB", "id": "P38812", "url": "https://www.uniprot.org/uniprotkb/P38812" } ], "reference": [ { "type": "PubMed", "id": "20485265", "url": "https://glygen.org/publication/PubMed/20485265" } ] } ], "crossref": [ { "id": "P38812", "url": "https://www.uniprot.org/uniprotkb/P38812", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "20485265", "url": "https://glygen.org/publication/PubMed/20485265", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "VPTFNDLPIPIHDSIKAVVL", "down_seq": "KDNCIAFPHDDKIWPDYLQH", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "N", "comment": "Abolishes phosphatase activity and impairs cardiolipin biosynthesis.", "evidence": [ { "database": "UniProtKB", "id": "P38812", "url": "https://www.uniprot.org/uniprotkb/P38812" }, { "database": "PubMed", "id": "20485265", "url": "https://glygen.org/publication/PubMed/20485265" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "168", "end_pos": "168" }, { "start_pos": "173", "end_pos": "173" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38812-1.47.47", "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": "P38812-1.47.47", "start_pos": 47, "end_pos": 47, "uniprot_canonical_ac": "P38812-1", "length": 185, "uniprot_id": "GEP4_YEAST", "protein_name": "Phosphatidylglycerophosphatase GEP4, mitochondrial", "refseq_ac": "NP_011968", "refseq_name": "phosphatidylglycerophosphatase", "gene_name": "GEP4", "gene_names_uniprotkb": "GEP4", "gene_names_refseq": "GEP4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38812", "url": "https://www.uniprot.org/uniprotkb/P38812" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A mitochondrial phosphatase required for cardiolipin biosynthesis: the PGP phosphatase Gep4.", "journal": "The EMBO journal", "date": "2010-06-16", "authors": "Osman Christof, Haag Mathias, Wieland Felix T, Br\u00fcgger Britta, Langer Thomas", "evidence": [ { "database": "UniProtKB", "id": "P38812", "url": "https://www.uniprot.org/uniprotkb/P38812" } ], "reference": [ { "type": "PubMed", "id": "20485265", "url": "https://glygen.org/publication/PubMed/20485265" } ] } ], "crossref": [ { "id": "P38812", "url": "https://www.uniprot.org/uniprotkb/P38812", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "20485265", "url": "https://glygen.org/publication/PubMed/20485265", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "TFNDLPIPIHDSIKAVVLDK", "down_seq": "NCIAFPHDDKIWPDYLQHWE", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "N", "comment": "Abolishes phosphatase activity and impairs cardiolipin biosynthesis.", "evidence": [ { "database": "UniProtKB", "id": "P38812", "url": "https://www.uniprot.org/uniprotkb/P38812" }, { "database": "PubMed", "id": "20485265", "url": "https://glygen.org/publication/PubMed/20485265" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "168", "end_pos": "168" }, { "start_pos": "173", "end_pos": "173" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38812-1.45.45", "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": "P38812-1.168.168", "start_pos": 168, "end_pos": 168, "uniprot_canonical_ac": "P38812-1", "length": 185, "uniprot_id": "GEP4_YEAST", "protein_name": "Phosphatidylglycerophosphatase GEP4, mitochondrial", "refseq_ac": "NP_011968", "refseq_name": "phosphatidylglycerophosphatase", "gene_name": "GEP4", "gene_names_uniprotkb": "GEP4", "gene_names_refseq": "GEP4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38812", "url": "https://www.uniprot.org/uniprotkb/P38812" } ], "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": "P38812", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38812" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001142", "url": "https://www.yeastgenome.org/locus/S000001142", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38812", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38812", "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": "ILMANLMGSYGVWIRDGVKV", "down_seq": "ANPLSKFEKKLYNFLGF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001142", "url": "https://www.yeastgenome.org/locus/S000001142" }, { "database": "iPTMnet", "id": "P38812", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38812" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser168" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "168", "end_pos": "168" }, { "start_pos": "173", "end_pos": "173" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P38812-1.173.173", "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": "P38812-1.173.173", "start_pos": 173, "end_pos": 173, "uniprot_canonical_ac": "P38812-1", "length": 185, "uniprot_id": "GEP4_YEAST", "protein_name": "Phosphatidylglycerophosphatase GEP4, mitochondrial", "refseq_ac": "NP_011968", "refseq_name": "phosphatidylglycerophosphatase", "gene_name": "GEP4", "gene_names_uniprotkb": "GEP4", "gene_names_refseq": "GEP4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38812", "url": "https://www.uniprot.org/uniprotkb/P38812" } ], "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": "P38812", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38812" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001142", "url": "https://www.yeastgenome.org/locus/S000001142", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38812", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38812", "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": "LMGSYGVWIRDGVKVSANPL", "down_seq": "KFEKKLYNFLGF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001142", "url": "https://www.yeastgenome.org/locus/S000001142" }, { "database": "iPTMnet", "id": "P38812", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38812" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser173" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "168", "end_pos": "168" }, { "start_pos": "173", "end_pos": "173" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38812-1.168.168", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38813-1.144.144", "start_pos": 144, "end_pos": 144, "uniprot_canonical_ac": "P38813-1", "length": 335, "uniprot_id": "BIG1_YEAST", "protein_name": "Protein BIG1", "refseq_ac": "NP_011969", "refseq_name": "Big1p", "gene_name": "BIG1", "gene_names_uniprotkb": "BIG1", "gene_names_refseq": "BIG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38813", "url": "https://www.uniprot.org/uniprotkb/P38813" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38813", "url": "https://www.uniprot.org/uniprotkb/P38813", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "DLAEFVKEYCNVDQVLNLRG", "down_seq": "NTEDFQPFIDSEKRVIIIEY", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn144", "evidence": [ { "id": "P38813", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38813#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "144", "end_pos": "144" }, { "start_pos": "24", "end_pos": "24" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "247", "end_pos": "247" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "97", "end_pos": "97" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38813-1.24.24", "start_pos": 24, "end_pos": 24, "uniprot_canonical_ac": "P38813-1", "length": 335, "uniprot_id": "BIG1_YEAST", "protein_name": "Protein BIG1", "refseq_ac": "NP_011969", "refseq_name": "Big1p", "gene_name": "BIG1", "gene_names_uniprotkb": "BIG1", "gene_names_refseq": "BIG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38813", "url": "https://www.uniprot.org/uniprotkb/P38813" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38813", "url": "https://www.uniprot.org/uniprotkb/P38813", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "VLKYLLLIMCGSFCASEELQ", "down_seq": "QTNVPAIFFSYKLTPGILKY", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn24", "evidence": [ { "id": "P38813", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38813#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "144", "end_pos": "144" }, { "start_pos": "24", "end_pos": "24" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "247", "end_pos": "247" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "97", "end_pos": "97" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38813-1.247.247", "start_pos": 247, "end_pos": 247, "uniprot_canonical_ac": "P38813-1", "length": 335, "uniprot_id": "BIG1_YEAST", "protein_name": "Protein BIG1", "refseq_ac": "NP_011969", "refseq_name": "Big1p", "gene_name": "BIG1", "gene_names_uniprotkb": "BIG1", "gene_names_refseq": "BIG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38813", "url": "https://www.uniprot.org/uniprotkb/P38813" } ], "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": "P38813", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38813" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001143", "url": "https://www.yeastgenome.org/locus/S000001143", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38813", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38813", "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": "IKSRVGEVEQNNRVLDVPRL", "down_seq": "FNDYTPRFSEPPSEYVSIFD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001143", "url": "https://www.yeastgenome.org/locus/S000001143" }, { "database": "iPTMnet", "id": "P38813", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38813" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser247" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "144", "end_pos": "144" }, { "start_pos": "24", "end_pos": "24" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "247", "end_pos": "247" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "331", "end_pos": "331" }, { "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": "P38813-1.315.315", "start_pos": 315, "end_pos": 315, "uniprot_canonical_ac": "P38813-1", "length": 335, "uniprot_id": "BIG1_YEAST", "protein_name": "Protein BIG1", "refseq_ac": "NP_011969", "refseq_name": "Big1p", "gene_name": "BIG1", "gene_names_uniprotkb": "BIG1", "gene_names_refseq": "BIG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38813", "url": "https://www.uniprot.org/uniprotkb/P38813" } ], "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": "P38813", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38813" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000001143", "url": "https://www.yeastgenome.org/locus/S000001143", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38813", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38813", "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": "FTKKTIVDEKITNKKDNVKQ", "down_seq": "SPQLLKKVQEIQKKPSQQVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001143", "url": "https://www.yeastgenome.org/locus/S000001143" }, { "database": "iPTMnet", "id": "P38813", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38813" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Thr315" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "144", "end_pos": "144" }, { "start_pos": "24", "end_pos": "24" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "247", "end_pos": "247" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38813-1.316.316", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38813-1.331.331", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38813-1.316.316", "start_pos": 316, "end_pos": 316, "uniprot_canonical_ac": "P38813-1", "length": 335, "uniprot_id": "BIG1_YEAST", "protein_name": "Protein BIG1", "refseq_ac": "NP_011969", "refseq_name": "Big1p", "gene_name": "BIG1", "gene_names_uniprotkb": "BIG1", "gene_names_refseq": "BIG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38813", "url": "https://www.uniprot.org/uniprotkb/P38813" } ], "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": "P38813", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38813" } ], "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": "P38813", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38813" } ], "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": "P38813", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38813" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001143", "url": "https://www.yeastgenome.org/locus/S000001143", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38813", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38813", "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": "TKKTIVDEKITNKKDNVKQT", "down_seq": "PQLLKKVQEIQKKPSQQVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001143", "url": "https://www.yeastgenome.org/locus/S000001143" }, { "database": "iPTMnet", "id": "P38813", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38813" }, { "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": "Ser316" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "144", "end_pos": "144" }, { "start_pos": "24", "end_pos": "24" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "247", "end_pos": "247" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38813-1.315.315", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38813-1.331.331", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38813-1.331.331", "start_pos": 331, "end_pos": 331, "uniprot_canonical_ac": "P38813-1", "length": 335, "uniprot_id": "BIG1_YEAST", "protein_name": "Protein BIG1", "refseq_ac": "NP_011969", "refseq_name": "Big1p", "gene_name": "BIG1", "gene_names_uniprotkb": "BIG1", "gene_names_refseq": "BIG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38813", "url": "https://www.uniprot.org/uniprotkb/P38813" } ], "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": "P38813", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38813" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001143", "url": "https://www.yeastgenome.org/locus/S000001143", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38813", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38813", "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": "NVKQTSPQLLKKVQEIQKKP", "down_seq": "QQVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001143", "url": "https://www.yeastgenome.org/locus/S000001143" }, { "database": "iPTMnet", "id": "P38813", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38813" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser331" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "144", "end_pos": "144" }, { "start_pos": "24", "end_pos": "24" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "247", "end_pos": "247" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38813-1.315.315", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38813-1.316.316", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38813-1.97.97", "start_pos": 97, "end_pos": 97, "uniprot_canonical_ac": "P38813-1", "length": 335, "uniprot_id": "BIG1_YEAST", "protein_name": "Protein BIG1", "refseq_ac": "NP_011969", "refseq_name": "Big1p", "gene_name": "BIG1", "gene_names_uniprotkb": "BIG1", "gene_names_refseq": "BIG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38813", "url": "https://www.uniprot.org/uniprotkb/P38813" } ], "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": "P38813", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38813" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001143", "url": "https://www.yeastgenome.org/locus/S000001143", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38813", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38813", "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": "FINQPGLRKLDFLEFETEFV", "down_seq": "LQRYIRRSSTAIKFEKVDLL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001143", "url": "https://www.yeastgenome.org/locus/S000001143" }, { "database": "iPTMnet", "id": "P38813", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38813" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser97" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "144", "end_pos": "144" }, { "start_pos": "24", "end_pos": "24" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "247", "end_pos": "247" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "331", "end_pos": "331" }, { "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": "P38814-1.116.116", "start_pos": 116, "end_pos": 116, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "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": "NSALPPPKVNPAQTRRERPA", "down_seq": "NSSIGTKTTEVFSSTSASSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "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": "Ser116" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38814-1.119.119", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38814-1.119.119", "start_pos": 119, "end_pos": 119, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "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": "LPPPKVNPAQTRRERPASNS", "down_seq": "IGTKTTEVFSSTSASSSLGD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "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": "Ser119" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38814-1.116.116", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38814-1.141.141", "start_pos": 141, "end_pos": 141, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "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": "GTKTTEVFSSTSASSSLGDT", "down_seq": "DEGEGSDADKSKINTFPSIL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser141" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "upstream", "id": "P38814-1.156.156", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38814-1.159.159", "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": "P38814-1.156.156", "start_pos": 156, "end_pos": 156, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "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": "SLGDTSDEGEGSDADKSKIN", "down_seq": "FPSILMEKATQGRGADGNGM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr156" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38814-1.141.141", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38814-1.159.159", "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": "P38814-1.159.159", "start_pos": 159, "end_pos": 159, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "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": "DTSDEGEGSDADKSKINTFP", "down_seq": "ILMEKATQGRGADGNGMRSA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser159" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38814-1.141.141", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38814-1.156.156", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38814-1.178.178", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38814-1.178.178", "start_pos": 178, "end_pos": 178, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "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": "PSILMEKATQGRGADGNGMR", "down_seq": "ASNNTIVEATTDGSKMALQK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser178" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38814-1.159.159", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38814-1.180.180", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38814-1.183.183", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38814-1.180.180", "start_pos": 180, "end_pos": 180, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "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": "ILMEKATQGRGADGNGMRSA", "down_seq": "NNTIVEATTDGSKMALQKSM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "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": "Ser180" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38814-1.178.178", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38814-1.183.183", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38814-1.199.199", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38814-1.183.183", "start_pos": 183, "end_pos": 183, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "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": "EKATQGRGADGNGMRSASNN", "down_seq": "IVEATTDGSKMALQKSMSFD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr183" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38814-1.178.178", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38814-1.180.180", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38814-1.199.199", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38814-1.201.201", "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": "P38814-1.199.199", "start_pos": 199, "end_pos": 199, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "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": "ASNNTIVEATTDGSKMALQK", "down_seq": "MSFDDTAAEKTMNKSRHSYQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser199" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38814-1.180.180", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38814-1.183.183", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38814-1.201.201", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38814-1.217.217", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38814-1.201.201", "start_pos": 201, "end_pos": 201, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "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": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "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": "NNTIVEATTDGSKMALQKSM", "down_seq": "FDDTAAEKTMNKSRHSYQEQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "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": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "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": "Ser201" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38814-1.183.183", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38814-1.199.199", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38814-1.217.217", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38814-1.217.217", "start_pos": 217, "end_pos": 217, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "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": "QKSMSFDDTAAEKTMNKSRH", "down_seq": "YQEQFSSKKSQSSLLNSKQR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser217" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38814-1.199.199", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38814-1.201.201", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38814-1.227.227", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38814-1.227.227", "start_pos": 227, "end_pos": 227, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "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": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "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": "AEKTMNKSRHSYQEQFSSKK", "down_seq": "QSSLLNSKQRSRAKSQTCSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "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": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser227" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38814-1.217.217", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38814-1.242.242", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38814-1.244.244", "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": "P38814-1.242.242", "start_pos": 242, "end_pos": 242, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "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": "FSSKKSQSSLLNSKQRSRAK", "down_seq": "QTCSSTGYNNSSILKTFGIS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "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": "Ser242" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38814-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38814-1.244.244", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38814-1.244.244", "start_pos": 244, "end_pos": 244, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "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": "SKKSQSSLLNSKQRSRAKSQ", "down_seq": "CSSTGYNNSSILKTFGISSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr244" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38814-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38814-1.242.242", "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": "P38814-1.25.25", "start_pos": 25, "end_pos": 25, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "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": "QERGTSAHLHSLKEGEASDR", "down_seq": "SEMLPKQRSIIGSHVQRPPS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser25" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "upstream", "id": "P38814-1.45.45", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38814-1.305.305", "start_pos": 305, "end_pos": 305, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "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": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "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": "KPLNCKPLTPSQKYRLRKEQ", "down_seq": "EMNLRNTIKRKEKFYDSQEQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "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": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser305" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "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": "P38814-1.382.382", "start_pos": 382, "end_pos": 382, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "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": "NNLAGKNDLSEYTGGLVNDN", "down_seq": "EISYTKQNHRYSNISFASTT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser382" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38814-1.385.385", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38814-1.385.385", "start_pos": 385, "end_pos": 385, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "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": "AGKNDLSEYTGGLVNDNSEI", "down_seq": "YTKQNHRYSNISFASTTSNA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser385" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38814-1.382.382", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38814-1.433.433", "start_pos": 433, "end_pos": 433, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "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": "MPTSPIPGLNKVTDFQFIQD", "down_seq": "TKSLASVYLHSSNRLSRSKL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr433" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "upstream", "id": "P38814-1.449.449", "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": "P38814-1.449.449", "start_pos": 449, "end_pos": 449, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "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": "FIQDTTKSLASVYLHSSNRL", "down_seq": "RSKLSERTKSSDFLPIELKE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "SGD", "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser449" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38814-1.433.433", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38814-1.457.457", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38814-1.459.459", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38814-1.460.460", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38814-1.457.457", "start_pos": 457, "end_pos": 457, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "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": "LASVYLHSSNRLSRSKLSER", "down_seq": "KSSDFLPIELKEAQNQGMED", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr457" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38814-1.449.449", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38814-1.459.459", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38814-1.460.460", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38814-1.459.459", "start_pos": 459, "end_pos": 459, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814", "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "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": "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": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "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": "SVYLHSSNRLSRSKLSERTK", "down_seq": "SDFLPIELKEAQNQGMEDLI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" }, { "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "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": "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": "SGD", "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "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": "Ser459" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38814-1.449.449", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38814-1.457.457", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38814-1.460.460", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38814-1.45.45", "start_pos": 45, "end_pos": 45, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "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": "SSEMLPKQRSIIGSHVQRPP", "down_seq": "QTTLGRSRAGSNTMNKVSGL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser45" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38814-1.25.25", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38814-1.56.56", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38814-1.63.63", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38814-1.460.460", "start_pos": 460, "end_pos": 460, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "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": "VYLHSSNRLSRSKLSERTKS", "down_seq": "DFLPIELKEAQNQGMEDLIL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser460" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38814-1.449.449", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38814-1.457.457", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38814-1.459.459", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38814-1.515.515", "start_pos": 515, "end_pos": 515, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "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": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "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": "SWLPPKDRQEKKLHERQINK", "down_seq": "MSVASLDQLGKNKDREEKLI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "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": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser515" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38814-1.517.517", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38814-1.520.520", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38814-1.517.517", "start_pos": 517, "end_pos": 517, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "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": "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": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "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": "LPPKDRQEKKLHERQINKSM", "down_seq": "VASLDQLGKNKDREEKLIRD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "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": "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": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "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": "Ser517" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38814-1.515.515", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38814-1.520.520", "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": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38814-1.520.520", "start_pos": 520, "end_pos": 520, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814", "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "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": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "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": "KDRQEKKLHERQINKSMSVA", "down_seq": "LDQLGKNKDREEKLIRDETN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" }, { "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "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": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "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": "Ser520" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38814-1.515.515", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38814-1.517.517", "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": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38814-1.557.557", "start_pos": 557, "end_pos": 557, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "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": "DETNRQKYVLLLDRDITRNS", "down_seq": "LQSLSKMVWDTPFSDETRST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser557" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38814-1.560.560", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38814-1.560.560", "start_pos": 560, "end_pos": 560, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "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": "NRQKYVLLLDRDITRNSSLQ", "down_seq": "LSKMVWDTPFSDETRSTIYS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser560" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38814-1.557.557", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38814-1.56.56", "start_pos": 56, "end_pos": 56, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "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": "IGSHVQRPPSQTTLGRSRAG", "down_seq": "NTMNKVSGLDIARRPSENLL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser56" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38814-1.45.45", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38814-1.63.63", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38814-1.72.72", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38814-1.63.63", "start_pos": 63, "end_pos": 63, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "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": "PPSQTTLGRSRAGSNTMNKV", "down_seq": "GLDIARRPSENLLSNMNCSD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser63" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38814-1.45.45", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38814-1.56.56", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38814-1.72.72", "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": "P38814-1.72.72", "start_pos": 72, "end_pos": 72, "uniprot_canonical_ac": "P38814-1", "length": 852, "uniprot_id": "SBE22_YEAST", "protein_name": "Protein SBE22", "refseq_ac": "NP_011971", "refseq_name": "Sbe22p", "gene_name": "SBE22", "gene_names_uniprotkb": "SBE22", "gene_names_refseq": "SBE22", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" } ], "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": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "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": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145", "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": "SRAGSNTMNKVSGLDIARRP", "down_seq": "ENLLSNMNCSDNGNGGNMLN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38814", "url": "https://www.uniprot.org/uniprotkb/P38814" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38814", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38814" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001145", "url": "https://www.yeastgenome.org/locus/S000001145" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser72" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "459", "end_pos": "459" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "72", "end_pos": "72" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38814-1.56.56", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38814-1.63.63", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38818-1.461.461", "start_pos": 461, "end_pos": 461, "uniprot_canonical_ac": "P38818-1", "length": 585, "uniprot_id": "CTM1_YEAST", "protein_name": "Cytochrome c lysine N-methyltransferase 1", "refseq_ac": "NP_011977", "refseq_name": "cytochrome c lysine N-methyltransferase", "gene_name": "CTM1", "gene_names_uniprotkb": "CTM1", "gene_names_refseq": "CTM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38818", "url": "https://www.uniprot.org/uniprotkb/P38818" } ], "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": "P38818", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38818" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P38818", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38818", "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": "QRHICSEDAVAVLKQEEMQD", "down_seq": "TKTKSQFTSFFRKFLEFRRS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38818", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38818" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser461" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "461", "end_pos": "461" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "563", "end_pos": "563" } ] } ], "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": "P38818-1.553.553", "start_pos": 553, "end_pos": 553, "uniprot_canonical_ac": "P38818-1", "length": 585, "uniprot_id": "CTM1_YEAST", "protein_name": "Cytochrome c lysine N-methyltransferase 1", "refseq_ac": "NP_011977", "refseq_name": "cytochrome c lysine N-methyltransferase", "gene_name": "CTM1", "gene_names_uniprotkb": "CTM1", "gene_names_refseq": "CTM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38818", "url": "https://www.uniprot.org/uniprotkb/P38818" } ], "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": "P38818", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38818" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001151", "url": "https://www.yeastgenome.org/locus/S000001151", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38818", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38818", "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": "LPPLRFLDDYIEISADKQEP", "down_seq": "PICEDLSYYTPSRFTDFFQE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001151", "url": "https://www.yeastgenome.org/locus/S000001151" }, { "database": "iPTMnet", "id": "P38818", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38818" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser553" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "461", "end_pos": "461" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "563", "end_pos": "563" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "upstream", "id": "P38818-1.563.563", "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": "P38818-1.563.563", "start_pos": 563, "end_pos": 563, "uniprot_canonical_ac": "P38818-1", "length": 585, "uniprot_id": "CTM1_YEAST", "protein_name": "Cytochrome c lysine N-methyltransferase 1", "refseq_ac": "NP_011977", "refseq_name": "cytochrome c lysine N-methyltransferase", "gene_name": "CTM1", "gene_names_uniprotkb": "CTM1", "gene_names_refseq": "CTM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38818", "url": "https://www.uniprot.org/uniprotkb/P38818" } ], "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": "P38818", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38818" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001151", "url": "https://www.yeastgenome.org/locus/S000001151", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38818", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38818", "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": "IEISADKQEPSPICEDLSYY", "down_seq": "PSRFTDFFQEEVSQYAAFFQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001151", "url": "https://www.yeastgenome.org/locus/S000001151" }, { "database": "iPTMnet", "id": "P38818", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38818" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr563" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "461", "end_pos": "461" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "563", "end_pos": "563" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38818-1.553.553", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38824-1.50.50", "start_pos": 50, "end_pos": 50, "uniprot_canonical_ac": "P38824-1", "length": 151, "uniprot_id": "COX23_YEAST", "protein_name": "Cytochrome c oxidase-assembly factor COX23, mitochondrial", "refseq_ac": "NP_011984", "refseq_name": "Cox23p", "gene_name": "COX23", "gene_names_uniprotkb": "COX23", "gene_names_refseq": "COX23", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38824", "url": "https://www.uniprot.org/uniprotkb/P38824" } ], "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": "TTNTNSGSTSSNNSQPSSSS", "down_seq": "PPAASGPVTDRTKVNYVPKS", "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": "Thr50", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "50", "end_pos": "50" } ] } ], "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": 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": "P38836-1.295.295", "start_pos": 295, "end_pos": 295, "uniprot_canonical_ac": "P38836-1", "length": 430, "uniprot_id": "ECM14_YEAST", "protein_name": "Inactive metallocarboxypeptidase ECM14", "refseq_ac": "NP_012000", "refseq_name": "putative metallocarboxypeptidase", "gene_name": "ECM14", "gene_names_uniprotkb": "ECM14", "gene_names_refseq": "ECM14", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38836", "url": "https://www.uniprot.org/uniprotkb/P38836" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38836", "url": "https://www.uniprot.org/uniprotkb/P38836", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "EYSGETPFEAWEASAWYKYI", "down_seq": "ETKGDYKIYGYIDMHSYSQE", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn295", "evidence": [ { "id": "P38836", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38836#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "295", "end_pos": "295" }, { "start_pos": "41", "end_pos": "41" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38836-1.41.41", "start_pos": 41, "end_pos": 41, "uniprot_canonical_ac": "P38836-1", "length": 430, "uniprot_id": "ECM14_YEAST", "protein_name": "Inactive metallocarboxypeptidase ECM14", "refseq_ac": "NP_012000", "refseq_name": "putative metallocarboxypeptidase", "gene_name": "ECM14", "gene_names_uniprotkb": "ECM14", "gene_names_refseq": "ECM14", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38836", "url": "https://www.uniprot.org/uniprotkb/P38836" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38836", "url": "https://www.uniprot.org/uniprotkb/P38836", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "AVQGLQEDYSEYAVYRFTSD", "down_seq": "YSTLVRDVIAPLTDDYDVWT", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn41", "evidence": [ { "id": "P38836", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38836#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "295", "end_pos": "295" }, { "start_pos": "41", "end_pos": "41" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38837-1.37.37", "start_pos": 37, "end_pos": 37, "uniprot_canonical_ac": "P38837-1", "length": 291, "uniprot_id": "NSG1_YEAST", "protein_name": "Protein NSG1", "refseq_ac": "NP_012001", "refseq_name": "Nsg1p", "gene_name": "NSG1", "gene_names_uniprotkb": "NSG1", "gene_names_refseq": "NSG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38837", "url": "https://www.uniprot.org/uniprotkb/P38837" } ], "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": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837" } ], "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": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837" } ], "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": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837", "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": "S000001175", "url": "https://www.yeastgenome.org/locus/S000001175", "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": "NGVHNTKKEAALPPLGNKLG", "down_seq": "ASFTAINTLTKPALFSFYDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837" }, { "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": "S000001175", "url": "https://www.yeastgenome.org/locus/S000001175" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser37" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38837-1.39.39", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38837-1.41.41", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38837-1.47.47", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38837-1.39.39", "start_pos": 39, "end_pos": 39, "uniprot_canonical_ac": "P38837-1", "length": 291, "uniprot_id": "NSG1_YEAST", "protein_name": "Protein NSG1", "refseq_ac": "NP_012001", "refseq_name": "Nsg1p", "gene_name": "NSG1", "gene_names_uniprotkb": "NSG1", "gene_names_refseq": "NSG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38837", "url": "https://www.uniprot.org/uniprotkb/P38837" } ], "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": "P38837", "url": "https://www.uniprot.org/uniprotkb/P38837" }, { "database": "iPTMnet", "id": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837" } ], "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": "UniProtKB", "id": "P38837", "url": "https://www.uniprot.org/uniprotkb/P38837" }, { "database": "iPTMnet", "id": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837" } ], "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": "P38837", "url": "https://www.uniprot.org/uniprotkb/P38837" }, { "database": "iPTMnet", "id": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837" } ], "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": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837" } ], "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": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837" } ], "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": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837" } ], "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": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837" } ], "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": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38837", "url": "https://www.uniprot.org/uniprotkb/P38837", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837", "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": "S000001175", "url": "https://www.yeastgenome.org/locus/S000001175", "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": "VHNTKKEAALPPLGNKLGSA", "down_seq": "FTAINTLTKPALFSFYDDDI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38837", "url": "https://www.uniprot.org/uniprotkb/P38837" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "iPTMnet", "id": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837" }, { "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": "SGD", "id": "S000001175", "url": "https://www.yeastgenome.org/locus/S000001175" }, { "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": "Ser39" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38837-1.37.37", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38837-1.41.41", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38837-1.47.47", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38837-1.41.41", "start_pos": 41, "end_pos": 41, "uniprot_canonical_ac": "P38837-1", "length": 291, "uniprot_id": "NSG1_YEAST", "protein_name": "Protein NSG1", "refseq_ac": "NP_012001", "refseq_name": "Nsg1p", "gene_name": "NSG1", "gene_names_uniprotkb": "NSG1", "gene_names_refseq": "NSG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38837", "url": "https://www.uniprot.org/uniprotkb/P38837" } ], "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": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837" } ], "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": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837", "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": "T", "start_aa": "T", "up_seq": "NTKKEAALPPLGNKLGSASF", "down_seq": "AINTLTKPALFSFYDDDITK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ], "site_lbl": "Thr41" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38837-1.37.37", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38837-1.39.39", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38837-1.47.47", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38837-1.47.47", "start_pos": 47, "end_pos": 47, "uniprot_canonical_ac": "P38837-1", "length": 291, "uniprot_id": "NSG1_YEAST", "protein_name": "Protein NSG1", "refseq_ac": "NP_012001", "refseq_name": "Nsg1p", "gene_name": "NSG1", "gene_names_uniprotkb": "NSG1", "gene_names_refseq": "NSG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38837", "url": "https://www.uniprot.org/uniprotkb/P38837" } ], "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": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001175", "url": "https://www.yeastgenome.org/locus/S000001175", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837", "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": "ALPPLGNKLGSASFTAINTL", "down_seq": "KPALFSFYDDDITKNEGNVY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001175", "url": "https://www.yeastgenome.org/locus/S000001175" }, { "database": "iPTMnet", "id": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr47" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38837-1.37.37", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38837-1.39.39", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38837-1.41.41", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38837-1.73.73", "start_pos": 73, "end_pos": 73, "uniprot_canonical_ac": "P38837-1", "length": 291, "uniprot_id": "NSG1_YEAST", "protein_name": "Protein NSG1", "refseq_ac": "NP_012001", "refseq_name": "Nsg1p", "gene_name": "NSG1", "gene_names_uniprotkb": "NSG1", "gene_names_refseq": "NSG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38837", "url": "https://www.uniprot.org/uniprotkb/P38837" } ], "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": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837" } ], "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": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001175", "url": "https://www.yeastgenome.org/locus/S000001175", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837", "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": "SFYDDDITKNEGNVYDKALL", "down_seq": "NASQLEMVPPSATARHERSL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001175", "url": "https://www.yeastgenome.org/locus/S000001175" }, { "database": "iPTMnet", "id": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser73" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38837-1.76.76", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38837-1.76.76", "start_pos": 76, "end_pos": 76, "uniprot_canonical_ac": "P38837-1", "length": 291, "uniprot_id": "NSG1_YEAST", "protein_name": "Protein NSG1", "refseq_ac": "NP_012001", "refseq_name": "Nsg1p", "gene_name": "NSG1", "gene_names_uniprotkb": "NSG1", "gene_names_refseq": "NSG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38837", "url": "https://www.uniprot.org/uniprotkb/P38837" } ], "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": "P38837", "url": "https://www.uniprot.org/uniprotkb/P38837" }, { "database": "iPTMnet", "id": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837" } ], "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": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837" } ], "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": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38837", "url": "https://www.uniprot.org/uniprotkb/P38837", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000001175", "url": "https://www.yeastgenome.org/locus/S000001175", "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": "DDDITKNEGNVYDKALLSNA", "down_seq": "QLEMVPPSATARHERSLYAK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38837", "url": "https://www.uniprot.org/uniprotkb/P38837" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38837", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38837" }, { "database": "SGD", "id": "S000001175", "url": "https://www.yeastgenome.org/locus/S000001175" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser76" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38837-1.73.73", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38839-1.59.59", "start_pos": 59, "end_pos": 59, "uniprot_canonical_ac": "P38839-1", "length": 148, "uniprot_id": "SPL2_YEAST", "protein_name": "Putative cyclin-dependent kinase inhibitor SPL2", "refseq_ac": "NP_012004", "refseq_name": "Spl2p", "gene_name": "SPL2", "gene_names_uniprotkb": "SPL2", "gene_names_refseq": "SPL2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38839", "url": "https://www.uniprot.org/uniprotkb/P38839" } ], "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": "P38839", "url": "https://www.uniprot.org/uniprotkb/P38839" }, { "database": "iPTMnet", "id": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" } ], "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", "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": "P38839", "url": "https://www.uniprot.org/uniprotkb/P38839" }, { "database": "iPTMnet", "id": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" } ], "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": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" } ], "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": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" } ], "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": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38839", "url": "https://www.uniprot.org/uniprotkb/P38839", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001178", "url": "https://www.yeastgenome.org/locus/S000001178", "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": "VSQGQHKQLKDGHQHKGRKL", "down_seq": "EEIASLLRLKECRRLNPASY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38839", "url": "https://www.uniprot.org/uniprotkb/P38839" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001178", "url": "https://www.yeastgenome.org/locus/S000001178" }, { "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": "Ser59" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P38839-1.64.64", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38839-1.78.78", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38839-1.64.64", "start_pos": 64, "end_pos": 64, "uniprot_canonical_ac": "P38839-1", "length": 148, "uniprot_id": "SPL2_YEAST", "protein_name": "Putative cyclin-dependent kinase inhibitor SPL2", "refseq_ac": "NP_012004", "refseq_name": "Spl2p", "gene_name": "SPL2", "gene_names_uniprotkb": "SPL2", "gene_names_refseq": "SPL2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38839", "url": "https://www.uniprot.org/uniprotkb/P38839" } ], "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": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001178", "url": "https://www.yeastgenome.org/locus/S000001178", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839", "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": "HKQLKDGHQHKGRKLSEEIA", "down_seq": "LLRLKECRRLNPASYYTPRR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001178", "url": "https://www.yeastgenome.org/locus/S000001178" }, { "database": "iPTMnet", "id": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser64" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38839-1.59.59", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38839-1.78.78", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38839-1.81.81", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38839-1.78.78", "start_pos": 78, "end_pos": 78, "uniprot_canonical_ac": "P38839-1", "length": 148, "uniprot_id": "SPL2_YEAST", "protein_name": "Putative cyclin-dependent kinase inhibitor SPL2", "refseq_ac": "NP_012004", "refseq_name": "Spl2p", "gene_name": "SPL2", "gene_names_uniprotkb": "SPL2", "gene_names_refseq": "SPL2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38839", "url": "https://www.uniprot.org/uniprotkb/P38839" } ], "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": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001178", "url": "https://www.yeastgenome.org/locus/S000001178", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839", "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": "LSEEIASLLRLKECRRLNPA", "down_seq": "YYTPRRTSQSQSLSGSTFKE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001178", "url": "https://www.yeastgenome.org/locus/S000001178" }, { "database": "iPTMnet", "id": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser78" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38839-1.59.59", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38839-1.64.64", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38839-1.81.81", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38839-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38839-1.86.86", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38839-1.88.88", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38839-1.90.90", "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": "P38839-1.81.81", "start_pos": 81, "end_pos": 81, "uniprot_canonical_ac": "P38839-1", "length": 148, "uniprot_id": "SPL2_YEAST", "protein_name": "Putative cyclin-dependent kinase inhibitor SPL2", "refseq_ac": "NP_012004", "refseq_name": "Spl2p", "gene_name": "SPL2", "gene_names_uniprotkb": "SPL2", "gene_names_refseq": "SPL2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38839", "url": "https://www.uniprot.org/uniprotkb/P38839" } ], "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": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001178", "url": "https://www.yeastgenome.org/locus/S000001178", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839", "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": "EIASLLRLKECRRLNPASYY", "down_seq": "PRRTSQSQSLSGSTFKEYNE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001178", "url": "https://www.yeastgenome.org/locus/S000001178" }, { "database": "iPTMnet", "id": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr81" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38839-1.64.64", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38839-1.78.78", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38839-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38839-1.86.86", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38839-1.88.88", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38839-1.90.90", "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": "P38839-1.85.85", "start_pos": 85, "end_pos": 85, "uniprot_canonical_ac": "P38839-1", "length": 148, "uniprot_id": "SPL2_YEAST", "protein_name": "Putative cyclin-dependent kinase inhibitor SPL2", "refseq_ac": "NP_012004", "refseq_name": "Spl2p", "gene_name": "SPL2", "gene_names_uniprotkb": "SPL2", "gene_names_refseq": "SPL2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38839", "url": "https://www.uniprot.org/uniprotkb/P38839" } ], "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": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" } ], "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": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001178", "url": "https://www.yeastgenome.org/locus/S000001178", "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": "LLRLKECRRLNPASYYTPRR", "down_seq": "SQSQSLSGSTFKEYNEYINE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001178", "url": "https://www.yeastgenome.org/locus/S000001178" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr85" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38839-1.78.78", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38839-1.81.81", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38839-1.86.86", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38839-1.88.88", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38839-1.90.90", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38839-1.86.86", "start_pos": 86, "end_pos": 86, "uniprot_canonical_ac": "P38839-1", "length": 148, "uniprot_id": "SPL2_YEAST", "protein_name": "Putative cyclin-dependent kinase inhibitor SPL2", "refseq_ac": "NP_012004", "refseq_name": "Spl2p", "gene_name": "SPL2", "gene_names_uniprotkb": "SPL2", "gene_names_refseq": "SPL2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38839", "url": "https://www.uniprot.org/uniprotkb/P38839" } ], "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": "P38839", "url": "https://www.uniprot.org/uniprotkb/P38839" }, { "database": "iPTMnet", "id": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" } ], "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": "P38839", "url": "https://www.uniprot.org/uniprotkb/P38839" }, { "database": "iPTMnet", "id": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" } ], "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": "P38839", "url": "https://www.uniprot.org/uniprotkb/P38839" }, { "database": "iPTMnet", "id": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" } ], "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": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" } ], "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": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" } ], "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": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" } ], "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": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38839", "url": "https://www.uniprot.org/uniprotkb/P38839", "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": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839", "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": "S000001178", "url": "https://www.yeastgenome.org/locus/S000001178", "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": "LRLKECRRLNPASYYTPRRT", "down_seq": "QSQSLSGSTFKEYNEYINEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38839", "url": "https://www.uniprot.org/uniprotkb/P38839" }, { "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": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" }, { "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": "S000001178", "url": "https://www.yeastgenome.org/locus/S000001178" }, { "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": "Ser86" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38839-1.78.78", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38839-1.81.81", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38839-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38839-1.88.88", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38839-1.90.90", "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": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38839-1.88.88", "start_pos": 88, "end_pos": 88, "uniprot_canonical_ac": "P38839-1", "length": 148, "uniprot_id": "SPL2_YEAST", "protein_name": "Putative cyclin-dependent kinase inhibitor SPL2", "refseq_ac": "NP_012004", "refseq_name": "Spl2p", "gene_name": "SPL2", "gene_names_uniprotkb": "SPL2", "gene_names_refseq": "SPL2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38839", "url": "https://www.uniprot.org/uniprotkb/P38839" } ], "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": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" } ], "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": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001178", "url": "https://www.yeastgenome.org/locus/S000001178", "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": "LKECRRLNPASYYTPRRTSQ", "down_seq": "QSLSGSTFKEYNEYINEKDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001178", "url": "https://www.yeastgenome.org/locus/S000001178" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser88" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38839-1.78.78", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38839-1.81.81", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38839-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38839-1.86.86", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38839-1.90.90", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38839-1.90.90", "start_pos": 90, "end_pos": 90, "uniprot_canonical_ac": "P38839-1", "length": 148, "uniprot_id": "SPL2_YEAST", "protein_name": "Putative cyclin-dependent kinase inhibitor SPL2", "refseq_ac": "NP_012004", "refseq_name": "Spl2p", "gene_name": "SPL2", "gene_names_uniprotkb": "SPL2", "gene_names_refseq": "SPL2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38839", "url": "https://www.uniprot.org/uniprotkb/P38839" } ], "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": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001178", "url": "https://www.yeastgenome.org/locus/S000001178", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839", "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": "ECRRLNPASYYTPRRTSQSQ", "down_seq": "LSGSTFKEYNEYINEKDSSR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001178", "url": "https://www.yeastgenome.org/locus/S000001178" }, { "database": "iPTMnet", "id": "P38839", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38839" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser90" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38839-1.78.78", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38839-1.81.81", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38839-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38839-1.86.86", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38839-1.88.88", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38845-1.313.313", "start_pos": 313, "end_pos": 313, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "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": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "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": "ELTPQVEAVTPLINEPEPLP", "down_seq": "PEAQISIPESSKVEPVEGSL", "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": "Thr313", "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": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "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": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr313" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38845-1.295.295", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38845-1.302.302", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38845-1.319.319", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38845-1.323.323", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38845-1.324.324", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38845-1.332.332", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38845-1.119.119", "start_pos": 119, "end_pos": 119, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] }, { "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "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": "VAGASRIPEAGGLLCGKPPR", "down_seq": "AGPPSTSNRKKNKRNNKKRR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser119" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P38845-1.124.124", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38845-1.125.125", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38845-1.126.126", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38845-1.124.124", "start_pos": 124, "end_pos": 124, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "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": "RIPEAGGLLCGKPPRSAGPP", "down_seq": "TSNRKKNKRNNKKRRSKLKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "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": "Ser124" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38845-1.119.119", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38845-1.125.125", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38845-1.126.126", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38845-1.125.125", "start_pos": 125, "end_pos": 125, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "IPEAGGLLCGKPPRSAGPPS", "down_seq": "SNRKKNKRNNKKRRSKLKKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" } ], "site_lbl": "Thr125" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38845-1.119.119", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38845-1.124.124", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38845-1.126.126", "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": "P38845-1.126.126", "start_pos": 126, "end_pos": 126, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "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": "PEAGGLLCGKPPRSAGPPST", "down_seq": "NRKKNKRNNKKRRSKLKKKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser126" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38845-1.119.119", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38845-1.124.124", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38845-1.125.125", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38845-1.153.153", "start_pos": 153, "end_pos": 153, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "database": "SGD", "categories": [ "Organism-specific" ] }, { "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": "RNNKKRRSKLKKKSTKNNKK", "down_seq": "NESLDDNEEEDGVTGTTTED", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "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": "Ser153" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38845-1.156.156", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38845-1.167.167", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38845-1.170.170", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38845-1.156.156", "start_pos": 156, "end_pos": 156, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "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": "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": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "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": "KKRRSKLKKKSTKNNKKSNE", "down_seq": "LDDNEEEDGVTGTTTEDVTG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "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": "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": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "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": "Ser156" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38845-1.153.153", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38845-1.167.167", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38845-1.170.170", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38845-1.167.167", "start_pos": 167, "end_pos": 167, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "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": "TKNNKKSNESLDDNEEEDGV", "down_seq": "GTTTEDVTGTSREETPLAEP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr167" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38845-1.153.153", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38845-1.156.156", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38845-1.170.170", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38845-1.177.177", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38845-1.178.178", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38845-1.182.182", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38845-1.170.170", "start_pos": 170, "end_pos": 170, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "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": "NKKSNESLDDNEEEDGVTGT", "down_seq": "TEDVTGTSREETPLAEPTNV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr170" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38845-1.153.153", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38845-1.156.156", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38845-1.167.167", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38845-1.177.177", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38845-1.178.178", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38845-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38845-1.188.188", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38845-1.177.177", "start_pos": 177, "end_pos": 177, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "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": "LDDNEEEDGVTGTTTEDVTG", "down_seq": "SREETPLAEPTNVSKEAPGN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "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": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38845-1.167.167", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38845-1.170.170", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38845-1.178.178", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38845-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38845-1.188.188", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38845-1.191.191", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38845-1.178.178", "start_pos": 178, "end_pos": 178, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "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": "DDNEEEDGVTGTTTEDVTGT", "down_seq": "REETPLAEPTNVSKEAPGNF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "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": "Ser178" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38845-1.167.167", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38845-1.170.170", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38845-1.177.177", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38845-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38845-1.188.188", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38845-1.191.191", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38845-1.182.182", "start_pos": 182, "end_pos": 182, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ] } ], "crossref": [ { "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "database": "iPTMnet", "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": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "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" ] }, { "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "EEDGVTGTTTEDVTGTSREE", "down_seq": "PLAEPTNVSKEAPGNFHILP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "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": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "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" }, { "database": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ], "site_lbl": "Thr182" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38845-1.167.167", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38845-1.170.170", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38845-1.177.177", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38845-1.178.178", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38845-1.188.188", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38845-1.191.191", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38845-1.188.188", "start_pos": 188, "end_pos": 188, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "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": "GTTTEDVTGTSREETPLAEP", "down_seq": "NVSKEAPGNFHILPIDQSAD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr188" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38845-1.170.170", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38845-1.177.177", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38845-1.178.178", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38845-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38845-1.191.191", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38845-1.191.191", "start_pos": 191, "end_pos": 191, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "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": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "database": "SGD", "categories": [ "Organism-specific" ] }, { "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": "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": "TEDVTGTSREETPLAEPTNV", "down_seq": "KEAPGNFHILPIDQSADTTQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "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": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "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": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser191" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38845-1.177.177", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38845-1.178.178", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38845-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38845-1.188.188", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38845-1.265.265", "start_pos": 265, "end_pos": 265, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "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": "NERLNKKEEVPEPVAGPIVE", "down_seq": "SVTEKSPALPQADDPIVETK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser265" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38845-1.266.266", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38845-1.268.268", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38845-1.271.271", "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": "P38845-1.266.266", "start_pos": 266, "end_pos": 266, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "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": "ERLNKKEEVPEPVAGPIVES", "down_seq": "VTEKSPALPQADDPIVETKE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser266" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38845-1.265.265", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38845-1.268.268", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38845-1.271.271", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38845-1.268.268", "start_pos": 268, "end_pos": 268, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "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": "LNKKEEVPEPVAGPIVESSV", "down_seq": "EKSPALPQADDPIVETKEVA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr268" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38845-1.265.265", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38845-1.266.266", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38845-1.271.271", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38845-1.271.271", "start_pos": 271, "end_pos": 271, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845", "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "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": "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": "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": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "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": "KEEVPEPVAGPIVESSVTEK", "down_seq": "PALPQADDPIVETKEVAHNV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "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": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "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": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "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": "Ser271" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38845-1.265.265", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38845-1.266.266", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38845-1.268.268", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38845-1.295.295", "start_pos": 295, "end_pos": 295, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845", "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "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": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "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": "PQADDPIVETKEVAHNVQEL", "down_seq": "PQVEAVTPLINEPEPLPTPE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "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": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr295" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "P38845-1.302.302", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38845-1.313.313", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38845-1.302.302", "start_pos": 302, "end_pos": 302, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "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": "VETKEVAHNVQELTPQVEAV", "down_seq": "PLINEPEPLPTPEAQISIPE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr302" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38845-1.295.295", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38845-1.313.313", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38845-1.319.319", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38845-1.319.319", "start_pos": 319, "end_pos": 319, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "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": "EAVTPLINEPEPLPTPEAQI", "down_seq": "IPESSKVEPVEGSLQSKLVE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "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": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser319" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38845-1.302.302", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38845-1.313.313", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38845-1.323.323", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38845-1.324.324", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38845-1.332.332", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38845-1.335.335", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38845-1.323.323", "start_pos": 323, "end_pos": 323, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "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": "PLINEPEPLPTPEAQISIPE", "down_seq": "SKVEPVEGSLQSKLVEKRES", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser323" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38845-1.313.313", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38845-1.319.319", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38845-1.324.324", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38845-1.332.332", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38845-1.335.335", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38845-1.343.343", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38845-1.324.324", "start_pos": 324, "end_pos": 324, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "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": "LINEPEPLPTPEAQISIPES", "down_seq": "KVEPVEGSLQSKLVEKREST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser324" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38845-1.313.313", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38845-1.319.319", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38845-1.323.323", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38845-1.332.332", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38845-1.335.335", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38845-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38845-1.344.344", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38845-1.332.332", "start_pos": 332, "end_pos": 332, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "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": "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": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "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": "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": "PTPEAQISIPESSKVEPVEG", "down_seq": "LQSKLVEKRESTEGVLDGSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "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": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "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": "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": "Ser332" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38845-1.313.313", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38845-1.319.319", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38845-1.323.323", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38845-1.324.324", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38845-1.335.335", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38845-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38845-1.344.344", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38845-1.351.351", "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": 11 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38845-1.335.335", "start_pos": 335, "end_pos": 335, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "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": "EAQISIPESSKVEPVEGSLQ", "down_seq": "KLVEKRESTEGVLDGSKKVE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "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": "Ser335" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38845-1.319.319", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38845-1.323.323", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38845-1.324.324", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38845-1.332.332", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38845-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38845-1.344.344", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38845-1.351.351", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38845-1.343.343", "start_pos": 343, "end_pos": 343, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "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": "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": "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": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "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": "SSKVEPVEGSLQSKLVEKRE", "down_seq": "TEGVLDGSKKVENKAKKDEE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "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": "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": "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": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "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": "Ser343" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38845-1.323.323", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P38845-1.324.324", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38845-1.332.332", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38845-1.335.335", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38845-1.344.344", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38845-1.351.351", "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": 17 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38845-1.344.344", "start_pos": 344, "end_pos": 344, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "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": "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": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "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" ] }, { "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": "SKVEPVEGSLQSKLVEKRES", "down_seq": "EGVLDGSKKVENKAKKDEEV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "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": "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": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "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" } ], "site_lbl": "Thr344" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38845-1.324.324", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38845-1.332.332", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38845-1.335.335", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38845-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38845-1.351.351", "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": 11 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38845-1.351.351", "start_pos": 351, "end_pos": 351, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "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": "GSLQSKLVEKRESTEGVLDG", "down_seq": "KKVENKAKKDEEVFTLDPIV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "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": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38845-1.332.332", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38845-1.335.335", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38845-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38845-1.344.344", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38845-1.366.366", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38845-1.366.366", "start_pos": 366, "end_pos": 366, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "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" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "GVLDGSKKVENKAKKDEEVF", "down_seq": "LDPIVNKAPKLPLTDEQTAE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "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": "Thr366" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38845-1.351.351", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38845-1.380.380", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38845-1.384.384", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38845-1.380.380", "start_pos": 380, "end_pos": 380, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "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": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "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": "KDEEVFTLDPIVNKAPKLPL", "down_seq": "DEQTAEGRKSPAVSEEKEKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "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": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr380" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38845-1.366.366", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38845-1.384.384", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38845-1.390.390", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38845-1.394.394", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38845-1.384.384", "start_pos": 384, "end_pos": 384, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "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": "T", "start_aa": "T", "up_seq": "VFTLDPIVNKAPKLPLTDEQ", "down_seq": "AEGRKSPAVSEEKEKKKKQE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "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": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "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": "Thr384" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38845-1.366.366", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38845-1.380.380", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38845-1.390.390", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38845-1.394.394", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38845-1.390.390", "start_pos": 390, "end_pos": 390, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "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": "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": "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": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "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": "IVNKAPKLPLTDEQTAEGRK", "down_seq": "PAVSEEKEKKKKQEKGSKEV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "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": "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": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "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": "Ser390" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38845-1.380.380", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38845-1.384.384", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38845-1.394.394", "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": 15 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38845-1.394.394", "start_pos": 394, "end_pos": 394, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "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": "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": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "database": "SGD", "categories": [ "Organism-specific" ] }, { "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": "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": "APKLPLTDEQTAEGRKSPAV", "down_seq": "EEKEKKKKQEKGSKEVKRSE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "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": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "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": "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": "Ser394" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38845-1.380.380", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38845-1.384.384", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38845-1.390.390", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38845-1.438.438", "start_pos": 438, "end_pos": 438, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "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": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "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": "EKKPSAKEVKKQTVKAPKKQ", "down_seq": "ASPLSSSTEEPKKKKTGFFG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "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": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr438" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38845-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38845-1.443.443", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38845-1.444.444", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38845-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38845-1.446.446", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38845-1.440.440", "start_pos": 440, "end_pos": 440, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845", "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "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": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "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": "KPSAKEVKKQTVKAPKKQTA", "down_seq": "PLSSSTEEPKKKKTGFFGKL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "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": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "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": "Ser440" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38845-1.438.438", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38845-1.443.443", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38845-1.444.444", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38845-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38845-1.446.446", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38845-1.443.443", "start_pos": 443, "end_pos": 443, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "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": "AKEVKKQTVKAPKKQTASPL", "down_seq": "SSTEEPKKKKTGFFGKLKKL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "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": "Ser443" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38845-1.438.438", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38845-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38845-1.444.444", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38845-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38845-1.446.446", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38845-1.444.444", "start_pos": 444, "end_pos": 444, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "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": "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": "KEVKKQTVKAPKKQTASPLS", "down_seq": "STEEPKKKKTGFFGKLKKLF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "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": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser444" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38845-1.438.438", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38845-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38845-1.443.443", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38845-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38845-1.446.446", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38845-1.445.445", "start_pos": 445, "end_pos": 445, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "database": "iPTMnet", "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": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EVKKQTVKAPKKQTASPLSS", "down_seq": "TEEPKKKKTGFFGKLKKLFK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "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": "Ser445" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38845-1.438.438", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38845-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38845-1.443.443", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38845-1.444.444", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38845-1.446.446", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38845-1.446.446", "start_pos": 446, "end_pos": 446, "uniprot_canonical_ac": "P38845-1", "length": 465, "uniprot_id": "CRP1_YEAST", "protein_name": "Cruciform DNA-recognizing protein 1", "refseq_ac": "NP_012016", "refseq_name": "Crp1p", "gene_name": "CRP1", "gene_names_uniprotkb": "CRP1", "gene_names_refseq": "CRP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38845", "url": "https://www.uniprot.org/uniprotkb/P38845" } ], "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": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845", "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": "VKKQTVKAPKKQTASPLSSS", "down_seq": "EEPKKKKTGFFGKLKKLFK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001189", "url": "https://www.yeastgenome.org/locus/S000001189" }, { "database": "iPTMnet", "id": "P38845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38845" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr446" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "313", "end_pos": "313" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "170", "end_pos": "170" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "319", "end_pos": "319" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "446", "end_pos": "446" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38845-1.438.438", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38845-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38845-1.443.443", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38845-1.444.444", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38845-1.445.445", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38848-1.361.361", "start_pos": 361, "end_pos": 361, "uniprot_canonical_ac": "P38848-1", "length": 579, "uniprot_id": "PEX28_YEAST", "protein_name": "Peroxisomal membrane protein PEX28", "refseq_ac": "NP_012020", "refseq_name": "Pex28p", "gene_name": "PEX28", "gene_names_uniprotkb": "PEX28", "gene_names_refseq": "PEX28", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38848", "url": "https://www.uniprot.org/uniprotkb/P38848" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38848", "url": "https://www.uniprot.org/uniprotkb/P38848", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "ENTGELKQGMKVLINLRDMQ", "down_seq": "MTSGTLHVIEAINSFLRKSS", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn361", "evidence": [ { "id": "P38848", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38848#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "334", "end_pos": "334" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "441", "end_pos": "441" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38848-1.334.334", "start_pos": 334, "end_pos": 334, "uniprot_canonical_ac": "P38848-1", "length": 579, "uniprot_id": "PEX28_YEAST", "protein_name": "Peroxisomal membrane protein PEX28", "refseq_ac": "NP_012020", "refseq_name": "Pex28p", "gene_name": "PEX28", "gene_names_uniprotkb": "PEX28", "gene_names_refseq": "PEX28", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38848", "url": "https://www.uniprot.org/uniprotkb/P38848" } ], "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": "P38848", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38848" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001193", "url": "https://www.yeastgenome.org/locus/S000001193", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38848", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38848", "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": "FFSKSFMDTLESRNQEIDEI", "down_seq": "ELDKRTENTGELKQGMKVLI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001193", "url": "https://www.yeastgenome.org/locus/S000001193" }, { "database": "iPTMnet", "id": "P38848", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38848" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser334" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "334", "end_pos": "334" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "441", "end_pos": "441" } ] } ], "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": "P38848-1.382.382", "start_pos": 382, "end_pos": 382, "uniprot_canonical_ac": "P38848-1", "length": 579, "uniprot_id": "PEX28_YEAST", "protein_name": "Peroxisomal membrane protein PEX28", "refseq_ac": "NP_012020", "refseq_name": "Pex28p", "gene_name": "PEX28", "gene_names_uniprotkb": "PEX28", "gene_names_refseq": "PEX28", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38848", "url": "https://www.uniprot.org/uniprotkb/P38848" } ], "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": "P38848", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38848" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001193", "url": "https://www.yeastgenome.org/locus/S000001193", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38848", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38848", "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": "MTSGTLHVIEAINSFLRKSS", "down_seq": "FQNEECSTKRFFTGFLLIVF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001193", "url": "https://www.yeastgenome.org/locus/S000001193" }, { "database": "iPTMnet", "id": "P38848", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38848" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser382" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "334", "end_pos": "334" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "441", "end_pos": "441" } ] } ], "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": "P38848-1.441.441", "start_pos": 441, "end_pos": 441, "uniprot_canonical_ac": "P38848-1", "length": 579, "uniprot_id": "PEX28_YEAST", "protein_name": "Peroxisomal membrane protein PEX28", "refseq_ac": "NP_012020", "refseq_name": "Pex28p", "gene_name": "PEX28", "gene_names_uniprotkb": "PEX28", "gene_names_refseq": "PEX28", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38848", "url": "https://www.uniprot.org/uniprotkb/P38848" } ], "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": "P38848", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38848" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P38848", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38848", "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": "WCLLIYMHPRAHPKIISFFK", "down_seq": "GTMGKEYKNLKKREHQALNM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38848", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38848" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr441" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "334", "end_pos": "334" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "441", "end_pos": "441" } ] } ], "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": "P38849-1.156.156", "start_pos": 156, "end_pos": 156, "uniprot_canonical_ac": "P38849-1", "length": 526, "uniprot_id": "MTC6_YEAST", "protein_name": "Maintenance of telomere capping protein 6", "refseq_ac": "NP_012021", "refseq_name": "Mtc6p", "gene_name": "MTC6", "gene_names_uniprotkb": "MTC6", "gene_names_refseq": "MTC6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38849", "url": "https://www.uniprot.org/uniprotkb/P38849" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38849", "url": "https://www.uniprot.org/uniprotkb/P38849", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "QSFIFSTQNNLYANIIVLLL", "down_seq": "ISAPELDSTEYRHQNQTLNT", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn156", "evidence": [ { "id": "P38849", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38849#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "156", "end_pos": "156" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "89", "end_pos": "89" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "187", "end_pos": "187" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "upstream", "id": "P38849-1.171.171", "categories": [ "glycosylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38849-1.175.175", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38849-1.171.171", "start_pos": 171, "end_pos": 171, "uniprot_canonical_ac": "P38849-1", "length": 526, "uniprot_id": "MTC6_YEAST", "protein_name": "Maintenance of telomere capping protein 6", "refseq_ac": "NP_012021", "refseq_name": "Mtc6p", "gene_name": "MTC6", "gene_names_uniprotkb": "MTC6", "gene_names_refseq": "MTC6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38849", "url": "https://www.uniprot.org/uniprotkb/P38849" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38849", "url": "https://www.uniprot.org/uniprotkb/P38849", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "IVLLLNISAPELDSTEYRHQ", "down_seq": "QTLNTTYILDKNLGNSFIYK", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn171", "evidence": [ { "id": "P38849", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38849#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "156", "end_pos": "156" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "89", "end_pos": "89" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "187", "end_pos": "187" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38849-1.156.156", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38849-1.175.175", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38849-1.187.187", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38849-1.175.175", "start_pos": 175, "end_pos": 175, "uniprot_canonical_ac": "P38849-1", "length": 526, "uniprot_id": "MTC6_YEAST", "protein_name": "Maintenance of telomere capping protein 6", "refseq_ac": "NP_012021", "refseq_name": "Mtc6p", "gene_name": "MTC6", "gene_names_uniprotkb": "MTC6", "gene_names_refseq": "MTC6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38849", "url": "https://www.uniprot.org/uniprotkb/P38849" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38849", "url": "https://www.uniprot.org/uniprotkb/P38849", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "LNISAPELDSTEYRHQNQTL", "down_seq": "TTYILDKNLGNSFIYKPTDL", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn175", "evidence": [ { "id": "P38849", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38849#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "156", "end_pos": "156" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "89", "end_pos": "89" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "187", "end_pos": "187" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38849-1.156.156", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38849-1.171.171", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38849-1.187.187", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38849-1.202.202", "start_pos": 202, "end_pos": 202, "uniprot_canonical_ac": "P38849-1", "length": 526, "uniprot_id": "MTC6_YEAST", "protein_name": "Maintenance of telomere capping protein 6", "refseq_ac": "NP_012021", "refseq_name": "Mtc6p", "gene_name": "MTC6", "gene_names_uniprotkb": "MTC6", "gene_names_refseq": "MTC6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38849", "url": "https://www.uniprot.org/uniprotkb/P38849" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38849", "url": "https://www.uniprot.org/uniprotkb/P38849", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "KNLGNSFIYKPTDLQSDRAK", "down_seq": "NTWNIYGKSSIDGWPTLGSV", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn202", "evidence": [ { "id": "P38849", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38849#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "156", "end_pos": "156" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "89", "end_pos": "89" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "187", "end_pos": "187" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38849-1.187.187", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38849-1.240.240", "start_pos": 240, "end_pos": 240, "uniprot_canonical_ac": "P38849-1", "length": 526, "uniprot_id": "MTC6_YEAST", "protein_name": "Maintenance of telomere capping protein 6", "refseq_ac": "NP_012021", "refseq_name": "Mtc6p", "gene_name": "MTC6", "gene_names_uniprotkb": "MTC6", "gene_names_refseq": "MTC6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38849", "url": "https://www.uniprot.org/uniprotkb/P38849" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38849", "url": "https://www.uniprot.org/uniprotkb/P38849", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "GSVLYEQKKRLVIGELTDFF", "down_seq": "ETTAPYIFPHDVFHYEQGNS", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn240", "evidence": [ { "id": "P38849", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38849#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "156", "end_pos": "156" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "89", "end_pos": "89" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "187", "end_pos": "187" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "upstream", "id": "P38849-1.259.259", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38849-1.259.259", "start_pos": 259, "end_pos": 259, "uniprot_canonical_ac": "P38849-1", "length": 526, "uniprot_id": "MTC6_YEAST", "protein_name": "Maintenance of telomere capping protein 6", "refseq_ac": "NP_012021", "refseq_name": "Mtc6p", "gene_name": "MTC6", "gene_names_uniprotkb": "MTC6", "gene_names_refseq": "MTC6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38849", "url": "https://www.uniprot.org/uniprotkb/P38849" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38849", "url": "https://www.uniprot.org/uniprotkb/P38849", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "FNETTAPYIFPHDVFHYEQG", "down_seq": "STLDCPSTVEGLTDLSSIHW", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn259", "evidence": [ { "id": "P38849", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38849#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "156", "end_pos": "156" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "89", "end_pos": "89" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "187", "end_pos": "187" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38849-1.240.240", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38849-1.311.311", "start_pos": 311, "end_pos": 311, "uniprot_canonical_ac": "P38849-1", "length": 526, "uniprot_id": "MTC6_YEAST", "protein_name": "Maintenance of telomere capping protein 6", "refseq_ac": "NP_012021", "refseq_name": "Mtc6p", "gene_name": "MTC6", "gene_names_uniprotkb": "MTC6", "gene_names_refseq": "MTC6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38849", "url": "https://www.uniprot.org/uniprotkb/P38849" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38849", "url": "https://www.uniprot.org/uniprotkb/P38849", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "IKEYISCGLSPIISNSAYVN", "down_seq": "VTQLADIIHEGSVWSWDSDQ", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn311", "evidence": [ { "id": "P38849", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38849#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "156", "end_pos": "156" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "89", "end_pos": "89" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "187", "end_pos": "187" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38849-1.32.32", "start_pos": 32, "end_pos": 32, "uniprot_canonical_ac": "P38849-1", "length": 526, "uniprot_id": "MTC6_YEAST", "protein_name": "Maintenance of telomere capping protein 6", "refseq_ac": "NP_012021", "refseq_name": "Mtc6p", "gene_name": "MTC6", "gene_names_uniprotkb": "MTC6", "gene_names_refseq": "MTC6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38849", "url": "https://www.uniprot.org/uniprotkb/P38849" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38849", "url": "https://www.uniprot.org/uniprotkb/P38849", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "SSLRTWVTAVDSTTTVGDDL", "down_seq": "ETVSASVWPTMSPQMTVAFR", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn32", "evidence": [ { "id": "P38849", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38849#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "156", "end_pos": "156" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "89", "end_pos": "89" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "187", "end_pos": "187" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38849-1.362.362", "start_pos": 362, "end_pos": 362, "uniprot_canonical_ac": "P38849-1", "length": 526, "uniprot_id": "MTC6_YEAST", "protein_name": "Maintenance of telomere capping protein 6", "refseq_ac": "NP_012021", "refseq_name": "Mtc6p", "gene_name": "MTC6", "gene_names_uniprotkb": "MTC6", "gene_names_refseq": "MTC6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38849", "url": "https://www.uniprot.org/uniprotkb/P38849" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38849", "url": "https://www.uniprot.org/uniprotkb/P38849", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "GSSSGTLEAYNCVLLYYFAN", "down_seq": "ETVTWRVGNCYNSNIGLCRY", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn362", "evidence": [ { "id": "P38849", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38849#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "156", "end_pos": "156" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "89", "end_pos": "89" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "187", "end_pos": "187" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38849-1.433.433", "start_pos": 433, "end_pos": 433, "uniprot_canonical_ac": "P38849-1", "length": 526, "uniprot_id": "MTC6_YEAST", "protein_name": "Maintenance of telomere capping protein 6", "refseq_ac": "NP_012021", "refseq_name": "Mtc6p", "gene_name": "MTC6", "gene_names_uniprotkb": "MTC6", "gene_names_refseq": "MTC6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38849", "url": "https://www.uniprot.org/uniprotkb/P38849" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38849", "url": "https://www.uniprot.org/uniprotkb/P38849", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "YSFNIPRSPLEQRSFIAYMR", "down_seq": "SSFSDTQIWIDLNSISVSNC", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn433", "evidence": [ { "id": "P38849", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38849#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "156", "end_pos": "156" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "89", "end_pos": "89" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "187", "end_pos": "187" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38849-1.60.60", "start_pos": 60, "end_pos": 60, "uniprot_canonical_ac": "P38849-1", "length": 526, "uniprot_id": "MTC6_YEAST", "protein_name": "Maintenance of telomere capping protein 6", "refseq_ac": "NP_012021", "refseq_name": "Mtc6p", "gene_name": "MTC6", "gene_names_uniprotkb": "MTC6", "gene_names_refseq": "MTC6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38849", "url": "https://www.uniprot.org/uniprotkb/P38849" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38849", "url": "https://www.uniprot.org/uniprotkb/P38849", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "WPTMSPQMTVAFRSQRDVMG", "down_seq": "LTIDQLPYVGLNLRRVLLNN", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn60", "evidence": [ { "id": "P38849", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38849#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "156", "end_pos": "156" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "89", "end_pos": "89" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "187", "end_pos": "187" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "upstream", "id": "P38849-1.80.80", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38849-1.80.80", "start_pos": 80, "end_pos": 80, "uniprot_canonical_ac": "P38849-1", "length": 526, "uniprot_id": "MTC6_YEAST", "protein_name": "Maintenance of telomere capping protein 6", "refseq_ac": "NP_012021", "refseq_name": "Mtc6p", "gene_name": "MTC6", "gene_names_uniprotkb": "MTC6", "gene_names_refseq": "MTC6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38849", "url": "https://www.uniprot.org/uniprotkb/P38849" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38849", "url": "https://www.uniprot.org/uniprotkb/P38849", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "NLTIDQLPYVGLNLRRVLLN", "down_seq": "ETSMVNEGNNTRLLTLFKSM", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn80", "evidence": [ { "id": "P38849", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38849#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "156", "end_pos": "156" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "89", "end_pos": "89" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "187", "end_pos": "187" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38849-1.60.60", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38849-1.89.89", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38849-1.89.89", "start_pos": 89, "end_pos": 89, "uniprot_canonical_ac": "P38849-1", "length": 526, "uniprot_id": "MTC6_YEAST", "protein_name": "Maintenance of telomere capping protein 6", "refseq_ac": "NP_012021", "refseq_name": "Mtc6p", "gene_name": "MTC6", "gene_names_uniprotkb": "MTC6", "gene_names_refseq": "MTC6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38849", "url": "https://www.uniprot.org/uniprotkb/P38849" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38849", "url": "https://www.uniprot.org/uniprotkb/P38849", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "VGLNLRRVLLNNETSMVNEG", "down_seq": "NTRLLTLFKSMLSSEANAFV", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn89", "evidence": [ { "id": "P38849", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38849#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "156", "end_pos": "156" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "89", "end_pos": "89" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "187", "end_pos": "187" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38849-1.80.80", "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38849-1.187.187", "start_pos": 187, "end_pos": 187, "uniprot_canonical_ac": "P38849-1", "length": 526, "uniprot_id": "MTC6_YEAST", "protein_name": "Maintenance of telomere capping protein 6", "refseq_ac": "NP_012021", "refseq_name": "Mtc6p", "gene_name": "MTC6", "gene_names_uniprotkb": "MTC6", "gene_names_refseq": "MTC6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38849", "url": "https://www.uniprot.org/uniprotkb/P38849" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Early steps in autophagy depend on direct phosphorylation of Atg9 by the Atg1 kinase.", "journal": "Molecular cell", "date": "2014-02-06", "authors": "Papinski Daniel, Schuschnig Martina, Reiter Wolfgang, Wilhelm Larissa, Barnes Christopher A, Maiolica Alessio, Hansmann Isabella, Pfaffenwimmer Thaddaeus, Kijanska Monika, Stoffel Ingrid, Lee Sung Sik, Brezovich Andrea, Lou Jane Hua, Turk Benjamin E, Aebersold Ruedi, Ammerer Gustav, Peter Matthias, Kraft Claudine", "evidence": [ { "database": "iPTMnet", "id": "P38849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38849" } ], "reference": [ { "type": "PubMed", "id": "24440502", "url": "https://glygen.org/publication/PubMed/24440502" } ] } ], "crossref": [ { "id": "S000001194", "url": "https://www.yeastgenome.org/locus/S000001194", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38849", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "24440502", "url": "https://glygen.org/publication/PubMed/24440502", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YRHQNQTLNTTYILDKNLGN", "down_seq": "FIYKPTDLQSDRAKNNTWNI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001194", "url": "https://www.yeastgenome.org/locus/S000001194" }, { "database": "iPTMnet", "id": "P38849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38849" }, { "database": "PubMed", "id": "24440502", "url": "https://glygen.org/publication/PubMed/24440502" } ], "site_lbl": "Ser187" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "156", "end_pos": "156" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "89", "end_pos": "89" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "187", "end_pos": "187" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38849-1.171.171", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38849-1.175.175", "categories": [ "glycosylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38849-1.202.202", "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": "P38852-1.26.26", "start_pos": 26, "end_pos": 26, "uniprot_canonical_ac": "P38852-1", "length": 340, "uniprot_id": "LIN1_YEAST", "protein_name": "Protein LIN1", "refseq_ac": "NP_012026", "refseq_name": "U5 snRNP complex subunit LIN1", "gene_name": "LIN1", "gene_names_uniprotkb": "LIN1", "gene_names_refseq": "LIN1; SNU40", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38852", "url": "https://www.uniprot.org/uniprotkb/P38852" } ], "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": "P38852", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38852" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001199", "url": "https://www.yeastgenome.org/locus/S000001199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38852", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38852", "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": "YPNSSKLKRNSDRREHDEKL", "down_seq": "DELHNQSTIYEDEELSRAEY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001199", "url": "https://www.yeastgenome.org/locus/S000001199" }, { "database": "iPTMnet", "id": "P38852", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38852" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser26" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "71", "end_pos": "71" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "P38852-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38852-1.42.42", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38852-1.33.33", "start_pos": 33, "end_pos": 33, "uniprot_canonical_ac": "P38852-1", "length": 340, "uniprot_id": "LIN1_YEAST", "protein_name": "Protein LIN1", "refseq_ac": "NP_012026", "refseq_name": "U5 snRNP complex subunit LIN1", "gene_name": "LIN1", "gene_names_uniprotkb": "LIN1", "gene_names_refseq": "LIN1; SNU40", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38852", "url": "https://www.uniprot.org/uniprotkb/P38852" } ], "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": "P38852", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38852" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001199", "url": "https://www.yeastgenome.org/locus/S000001199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38852", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38852", "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": "KRNSDRREHDEKLSDELHNQ", "down_seq": "TIYEDEELSRAEYDSDSDSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001199", "url": "https://www.yeastgenome.org/locus/S000001199" }, { "database": "iPTMnet", "id": "P38852", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38852" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser33" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "71", "end_pos": "71" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38852-1.26.26", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38852-1.42.42", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38852-1.42.42", "start_pos": 42, "end_pos": 42, "uniprot_canonical_ac": "P38852-1", "length": 340, "uniprot_id": "LIN1_YEAST", "protein_name": "Protein LIN1", "refseq_ac": "NP_012026", "refseq_name": "U5 snRNP complex subunit LIN1", "gene_name": "LIN1", "gene_names_uniprotkb": "LIN1", "gene_names_refseq": "LIN1; SNU40", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38852", "url": "https://www.uniprot.org/uniprotkb/P38852" } ], "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": "P38852", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38852" } ], "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": "P38852", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38852" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001199", "url": "https://www.yeastgenome.org/locus/S000001199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38852", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38852", "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": "DEKLSDELHNQSTIYEDEEL", "down_seq": "RAEYDSDSDSSVEDSTDNEN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001199", "url": "https://www.yeastgenome.org/locus/S000001199" }, { "database": "iPTMnet", "id": "P38852", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38852" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser42" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "71", "end_pos": "71" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38852-1.26.26", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38852-1.33.33", "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": "P38852-1.71.71", "start_pos": 71, "end_pos": 71, "uniprot_canonical_ac": "P38852-1", "length": 340, "uniprot_id": "LIN1_YEAST", "protein_name": "Protein LIN1", "refseq_ac": "NP_012026", "refseq_name": "U5 snRNP complex subunit LIN1", "gene_name": "LIN1", "gene_names_uniprotkb": "LIN1", "gene_names_refseq": "LIN1; SNU40", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38852", "url": "https://www.uniprot.org/uniprotkb/P38852" } ], "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": "P38852", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38852" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001199", "url": "https://www.yeastgenome.org/locus/S000001199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38852", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38852", "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": "DSSVEDSTDNENSGKEMDEK", "down_seq": "YEKNEDHVEDHRKRKKSKIQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001199", "url": "https://www.yeastgenome.org/locus/S000001199" }, { "database": "iPTMnet", "id": "P38852", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38852" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser71" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "71", "end_pos": "71" } ] } ], "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": "P38854-1.20.20", "start_pos": 20, "end_pos": 20, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "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": "", "down_seq": "TRNSIISMSPVRKTGRKIRS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser20" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P38854-1.24.24", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38854-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38854-1.29.29", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38854-1.236.236", "start_pos": 236, "end_pos": 236, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "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": "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": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202", "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": "T", "start_aa": "T", "up_seq": "ARELHELKEQVSKHLDPSLN", "down_seq": "PVKNRAFSPVYQNIPLESRT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P00546-1", "kinase_gene_name": "CDC28", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "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": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Thr236" }, { "kinase_uniprot_canonical_ac": "P24869-1", "kinase_gene_name": "CLB2", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "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": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Thr236" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" }, { "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": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "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": "Thr236" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "P38854-1.244.244", "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": 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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38854-1.244.244", "start_pos": 244, "end_pos": 244, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "database": "iPTMnet", "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": "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": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202", "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": "EQVSKHLDPSLNTPVKNRAF", "down_seq": "PVYQNIPLESRTENAGNSSL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P00546-1", "kinase_gene_name": "CDC28", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "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": "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" } ], "site_lbl": "Ser244" }, { "kinase_uniprot_canonical_ac": "P24869-1", "kinase_gene_name": "CLB2", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "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": "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" } ], "site_lbl": "Ser244" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "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": "Ser244" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38854-1.236.236", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38854-1.263.263", "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": 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": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38854-1.24.24", "start_pos": 24, "end_pos": 24, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "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": "FDEFIESNEKDLDVDTSTRN", "down_seq": "IISMSPVRKTGRKIRSASSN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser24" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38854-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38854-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38854-1.29.29", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38854-1.42.42", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38854-1.263.263", "start_pos": 263, "end_pos": 263, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "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": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202", "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": "FSPVYQNIPLESRTENAGNS", "down_seq": "LPSSVSKPKNMGHQSTNQSR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "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": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202" }, { "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": "Ser263" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38854-1.244.244", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38854-1.266.266", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38854-1.267.267", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38854-1.282.282", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38854-1.266.266", "start_pos": 266, "end_pos": 266, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "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": "VYQNIPLESRTENAGNSSLP", "down_seq": "SVSKPKNMGHQSTNQSRSVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser266" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38854-1.263.263", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38854-1.267.267", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38854-1.282.282", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38854-1.284.284", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38854-1.286.286", "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": "P38854-1.267.267", "start_pos": 267, "end_pos": 267, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "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": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202", "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": "YQNIPLESRTENAGNSSLPS", "down_seq": "VSKPKNMGHQSTNQSRSVSP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "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": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202" }, { "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": "Ser267" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38854-1.263.263", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38854-1.266.266", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38854-1.282.282", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38854-1.284.284", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38854-1.286.286", "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": "P38854-1.27.27", "start_pos": 27, "end_pos": 27, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "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": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202", "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": "FIESNEKDLDVDTSTRNSII", "down_seq": "MSPVRKTGRKIRSASSNGYR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "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": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202" }, { "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": "Ser27" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38854-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38854-1.24.24", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38854-1.29.29", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38854-1.42.42", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38854-1.282.282", "start_pos": 282, "end_pos": 282, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "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": "SSLPSSVSKPKNMGHQSTNQ", "down_seq": "RSVSPQDIQERRQRDDSSDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Ser282" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38854-1.263.263", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38854-1.266.266", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38854-1.267.267", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38854-1.284.284", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38854-1.286.286", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38854-1.299.299", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38854-1.284.284", "start_pos": 284, "end_pos": 284, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "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": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202", "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": "LPSSVSKPKNMGHQSTNQSR", "down_seq": "VSPQDIQERRQRDDSSDSSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "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": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser284" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38854-1.266.266", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38854-1.267.267", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38854-1.282.282", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38854-1.286.286", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38854-1.299.299", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38854-1.286.286", "start_pos": 286, "end_pos": 286, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "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": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202", "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": "SSVSKPKNMGHQSTNQSRSV", "down_seq": "PQDIQERRQRDDSSDSSKQS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "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": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202" }, { "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": "Ser286" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38854-1.266.266", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P38854-1.267.267", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38854-1.282.282", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38854-1.284.284", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38854-1.299.299", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38854-1.299.299", "start_pos": 299, "end_pos": 299, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TNQSRSVSPQDIQERRQRDD", "down_seq": "SDSSKQSLWSKPLALFNQFD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202" } ], "site_lbl": "Ser299" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38854-1.282.282", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38854-1.284.284", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38854-1.286.286", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38854-1.29.29", "start_pos": 29, "end_pos": 29, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "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": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202", "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": "ESNEKDLDVDTSTRNSIISM", "down_seq": "PVRKTGRKIRSASSNGYRLE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P00546-1", "kinase_gene_name": "CDC28", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "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" } ], "site_lbl": "Ser29" }, { "kinase_uniprot_canonical_ac": "P24869-1", "kinase_gene_name": "CLB2", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "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" } ], "site_lbl": "Ser29" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "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": "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": "Ser29" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38854-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38854-1.24.24", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38854-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38854-1.42.42", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_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": "P38854-1.348.348", "start_pos": 348, "end_pos": 348, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "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": "RTLNWDDSLSGTPEVQEGTP", "down_seq": "SNSESSAQQYDNEAPGARQK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr348" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "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": "P38854-1.369.369", "start_pos": 369, "end_pos": 369, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "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": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202", "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": "SNSESSAQQYDNEAPGARQK", "down_seq": "PSQGSVSRSLWSFVSDVKAG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "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": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202" }, { "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": "Ser369" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38854-1.371.371", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38854-1.381.381", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38854-1.371.371", "start_pos": 371, "end_pos": 371, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "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": "SESSAQQYDNEAPGARQKSP", "down_seq": "QGSVSRSLWSFVSDVKAGLL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser371" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38854-1.369.369", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38854-1.381.381", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38854-1.381.381", "start_pos": 381, "end_pos": 381, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "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": "EAPGARQKSPSQGSVSRSLW", "down_seq": "FVSDVKAGLLGIEEENDNDV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser381" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38854-1.369.369", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38854-1.371.371", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38854-1.42.42", "start_pos": 42, "end_pos": 42, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "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": "RNSIISMSPVRKTGRKIRSA", "down_seq": "SNGYRLEHHRTSSAGSMHSQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser42" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38854-1.24.24", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38854-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38854-1.29.29", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38854-1.55.55", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38854-1.435.435", "start_pos": 435, "end_pos": 435, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202", "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": "RQHEQKKSTHKITNRGQAED", "down_seq": "GDDSSLNMRKFKTTTKFQKD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202" }, { "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": "Ser435" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P38854-1.440.440", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38854-1.440.440", "start_pos": 440, "end_pos": 440, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202", "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": "KKSTHKITNRGQAEDSGDDS", "down_seq": "LNMRKFKTTTKFQKDNAGNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202" }, { "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": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38854-1.435.435", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38854-1.461.461", "start_pos": 461, "end_pos": 461, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "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": "LNMRKFKTTTKFQKDNAGNN", "down_seq": "LTDESGHRTREKKSKRSSNK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "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": "Ser461" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "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": "P38854-1.493.493", "start_pos": 493, "end_pos": 493, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "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": "KKSKRSSNKLSFIGEPDNDN", "down_seq": "SVKNSVEMTDF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser493" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38854-1.494.494", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38854-1.494.494", "start_pos": 494, "end_pos": 494, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "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": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202", "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": "KSKRSSNKLSFIGEPDNDNS", "down_seq": "VKNSVEMTDF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "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": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202" }, { "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": "Ser494" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38854-1.493.493", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38854-1.55.55", "start_pos": 55, "end_pos": 55, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202", "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": "GRKIRSASSNGYRLEHHRTS", "down_seq": "AGSMHSQRLMTPTRLNDQDH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser55" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38854-1.42.42", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38854-1.88.88", "start_pos": 88, "end_pos": 88, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "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": "TRLNDQDHPLQAKPDARRVV", "down_seq": "RHSSVSVPNAMSKRRSLIQP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Thr88" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38854-1.91.91", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38854-1.92.92", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38854-1.94.94", "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": "P38854-1.91.91", "start_pos": 91, "end_pos": 91, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "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": "NDQDHPLQAKPDARRVVTRH", "down_seq": "SVSVPNAMSKRRSLIQPMVV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Ser91" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38854-1.88.88", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38854-1.92.92", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38854-1.94.94", "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": "P38854-1.92.92", "start_pos": 92, "end_pos": 92, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "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": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202", "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": "DQDHPLQAKPDARRVVTRHS", "down_seq": "VSVPNAMSKRRSLIQPMVVP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "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": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser92" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38854-1.88.88", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38854-1.91.91", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38854-1.94.94", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38854-1.94.94", "start_pos": 94, "end_pos": 94, "uniprot_canonical_ac": "P38854-1", "length": 504, "uniprot_id": "TDA11_YEAST", "protein_name": "Topoisomerase I damage affected protein 11", "refseq_ac": "NP_012029", "refseq_name": "Tda11p", "gene_name": "TDA11", "gene_names_uniprotkb": "TDA11", "gene_names_refseq": "TDA11", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38854", "url": "https://www.uniprot.org/uniprotkb/P38854" } ], "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": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854", "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": "DHPLQAKPDARRVVTRHSSV", "down_seq": "VPNAMSKRRSLIQPMVVPTT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001202", "url": "https://www.yeastgenome.org/locus/S000001202" }, { "database": "iPTMnet", "id": "P38854", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38854" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser94" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "20", "end_pos": "20" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "88", "end_pos": "88" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38854-1.88.88", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38854-1.91.91", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38854-1.92.92", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38858-1.115.115", "start_pos": 115, "end_pos": 115, "uniprot_canonical_ac": "P38858-1", "length": 249, "uniprot_id": "SOL3_YEAST", "protein_name": "6-phosphogluconolactonase 3", "refseq_ac": "NP_012033", "refseq_name": "6-phosphogluconolactonase SOL3", "gene_name": "SOL3", "gene_names_uniprotkb": "SOL3", "gene_names_refseq": "SOL3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38858", "url": "https://www.uniprot.org/uniprotkb/P38858" } ], "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": "P38858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001206", "url": "https://www.yeastgenome.org/locus/S000001206", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38858", "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": "DKLPSTSQPNVYPMDESLIG", "down_seq": "DAESNNKIAAEYERIVPQVL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001206", "url": "https://www.yeastgenome.org/locus/S000001206" }, { "database": "iPTMnet", "id": "P38858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38858" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser115" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "174", "end_pos": "174" } ] } ], "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": "P38858-1.12.12", "start_pos": 12, "end_pos": 12, "uniprot_canonical_ac": "P38858-1", "length": 249, "uniprot_id": "SOL3_YEAST", "protein_name": "6-phosphogluconolactonase 3", "refseq_ac": "NP_012033", "refseq_name": "6-phosphogluconolactonase SOL3", "gene_name": "SOL3", "gene_names_uniprotkb": "SOL3", "gene_names_refseq": "SOL3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38858", "url": "https://www.uniprot.org/uniprotkb/P38858" } ], "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": "P38858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001206", "url": "https://www.yeastgenome.org/locus/S000001206", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38858", "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": "MVTVGVFSERA", "down_seq": "LTHQLGEFIVKKQDEALQKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001206", "url": "https://www.yeastgenome.org/locus/S000001206" }, { "database": "iPTMnet", "id": "P38858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38858" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser12" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "174", "end_pos": "174" } ] } ], "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": "P38858-1.174.174", "start_pos": 174, "end_pos": 174, "uniprot_canonical_ac": "P38858-1", "length": 249, "uniprot_id": "SOL3_YEAST", "protein_name": "6-phosphogluconolactonase 3", "refseq_ac": "NP_012033", "refseq_name": "6-phosphogluconolactonase SOL3", "gene_name": "SOL3", "gene_names_uniprotkb": "SOL3", "gene_names_refseq": "SOL3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38858", "url": "https://www.uniprot.org/uniprotkb/P38858" } ], "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": "P38858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001206", "url": "https://www.yeastgenome.org/locus/S000001206", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38858", "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": "GETHRYLLNETTKRVAWCHD", "down_seq": "PKPPSDRITFTLPVLKDAKA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001206", "url": "https://www.yeastgenome.org/locus/S000001206" }, { "database": "iPTMnet", "id": "P38858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38858" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser174" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "174", "end_pos": "174" } ] } ], "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": "P38861-1.189.189", "start_pos": 189, "end_pos": 189, "uniprot_canonical_ac": "P38861-1", "length": 518, "uniprot_id": "NMD3_YEAST", "protein_name": "60S ribosomal export protein NMD3", "refseq_ac": "NP_012040", "refseq_name": "ribosome-binding protein NMD3", "gene_name": "NMD3", "gene_names_uniprotkb": "NMD3", "gene_names_refseq": "NMD3; SRC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38861", "url": "https://www.uniprot.org/uniprotkb/P38861" } ], "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": "P38861", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38861" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001213", "url": "https://www.yeastgenome.org/locus/S000001213", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38861", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38861", "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": "RTFLFLEQLILKHNAHVDTI", "down_seq": "ISEAKDGLDFFYAQKNHAVK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001213", "url": "https://www.yeastgenome.org/locus/S000001213" }, { "database": "iPTMnet", "id": "P38861", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38861" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser189" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" } ] } ], "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": "P38861-1.225.225", "start_pos": 225, "end_pos": 225, "uniprot_canonical_ac": "P38861-1", "length": 518, "uniprot_id": "NMD3_YEAST", "protein_name": "60S ribosomal export protein NMD3", "refseq_ac": "NP_012040", "refseq_name": "ribosome-binding protein NMD3", "gene_name": "NMD3", "gene_names_uniprotkb": "NMD3", "gene_names_refseq": "NMD3; SRC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38861", "url": "https://www.uniprot.org/uniprotkb/P38861" } ], "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": "P38861", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38861" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001213", "url": "https://www.yeastgenome.org/locus/S000001213", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38861", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38861", "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": "NHAVKMIDFLNAVVPIKHKK", "down_seq": "EELISQDTHTGASTYKFSYS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001213", "url": "https://www.yeastgenome.org/locus/S000001213" }, { "database": "iPTMnet", "id": "P38861", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38861" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser225" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" } ] } ], "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": "P38861-1.266.266", "start_pos": 266, "end_pos": 266, "uniprot_canonical_ac": "P38861-1", "length": 518, "uniprot_id": "NMD3_YEAST", "protein_name": "60S ribosomal export protein NMD3", "refseq_ac": "NP_012040", "refseq_name": "ribosome-binding protein NMD3", "gene_name": "NMD3", "gene_names_uniprotkb": "NMD3", "gene_names_refseq": "NMD3; SRC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38861", "url": "https://www.uniprot.org/uniprotkb/P38861" } ], "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": "P38861", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38861" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001213", "url": "https://www.yeastgenome.org/locus/S000001213", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38861", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38861", "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": "VEIVPICKDDLVVLPKKLAK", "down_seq": "MGNISQFVLCSKISNTVQFM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001213", "url": "https://www.yeastgenome.org/locus/S000001213" }, { "database": "iPTMnet", "id": "P38861", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38861" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser266" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" } ] } ], "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": "P38861-1.427.427", "start_pos": 427, "end_pos": 427, "uniprot_canonical_ac": "P38861-1", "length": 518, "uniprot_id": "NMD3_YEAST", "protein_name": "60S ribosomal export protein NMD3", "refseq_ac": "NP_012040", "refseq_name": "ribosome-binding protein NMD3", "gene_name": "NMD3", "gene_names_uniprotkb": "NMD3", "gene_names_refseq": "NMD3; SRC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38861", "url": "https://www.uniprot.org/uniprotkb/P38861" } ], "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": "P38861", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38861" } ], "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": "P38861", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38861" } ], "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": "P38861", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38861" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001213", "url": "https://www.yeastgenome.org/locus/S000001213", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38861", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38861", "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": "KKSRHWKLKRMAKEHKDIDA", "down_seq": "LDYNSRAQKQEMERAEKDYE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001213", "url": "https://www.yeastgenome.org/locus/S000001213" }, { "database": "iPTMnet", "id": "P38861", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38861" }, { "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": "Ser427" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "upstream", "id": "P38861-1.446.446", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38861-1.446.446", "start_pos": 446, "end_pos": 446, "uniprot_canonical_ac": "P38861-1", "length": 518, "uniprot_id": "NMD3_YEAST", "protein_name": "60S ribosomal export protein NMD3", "refseq_ac": "NP_012040", "refseq_name": "ribosome-binding protein NMD3", "gene_name": "NMD3", "gene_names_uniprotkb": "NMD3", "gene_names_refseq": "NMD3; SRC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38861", "url": "https://www.uniprot.org/uniprotkb/P38861" } ], "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": "iPTMnet", "id": "P38861", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38861" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38861", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38861", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001213", "url": "https://www.yeastgenome.org/locus/S000001213", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "ASLDYNSRAQKQEMERAEKD", "down_seq": "ELFLQELEEDAELRQSVNLY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38861", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38861" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001213", "url": "https://www.yeastgenome.org/locus/S000001213" } ], "site_lbl": "Tyr446" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38861-1.427.427", "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": "P38861-1.512.512", "start_pos": 512, "end_pos": 512, "uniprot_canonical_ac": "P38861-1", "length": 518, "uniprot_id": "NMD3_YEAST", "protein_name": "60S ribosomal export protein NMD3", "refseq_ac": "NP_012040", "refseq_name": "ribosome-binding protein NMD3", "gene_name": "NMD3", "gene_names_uniprotkb": "NMD3", "gene_names_refseq": "NMD3; SRC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38861", "url": "https://www.uniprot.org/uniprotkb/P38861" } ], "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": "P38861", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38861" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001213", "url": "https://www.yeastgenome.org/locus/S000001213", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38861", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38861", "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": "NIDELLDELDEMTLEDGVEN", "down_seq": "PVESQQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001213", "url": "https://www.yeastgenome.org/locus/S000001213" }, { "database": "iPTMnet", "id": "P38861", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38861" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr512" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P38861-1.516.516", "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": "P38861-1.516.516", "start_pos": 516, "end_pos": 516, "uniprot_canonical_ac": "P38861-1", "length": 518, "uniprot_id": "NMD3_YEAST", "protein_name": "60S ribosomal export protein NMD3", "refseq_ac": "NP_012040", "refseq_name": "ribosome-binding protein NMD3", "gene_name": "NMD3", "gene_names_uniprotkb": "NMD3", "gene_names_refseq": "NMD3; SRC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38861", "url": "https://www.uniprot.org/uniprotkb/P38861" } ], "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": "P38861", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38861" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001213", "url": "https://www.yeastgenome.org/locus/S000001213", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38861", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38861", "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": "LLDELDEMTLEDGVENTPVE", "down_seq": "QQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001213", "url": "https://www.yeastgenome.org/locus/S000001213" }, { "database": "iPTMnet", "id": "P38861", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38861" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser516" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38861-1.512.512", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38865-1.22.22", "start_pos": 22, "end_pos": 22, "uniprot_canonical_ac": "P38865-1", "length": 189, "uniprot_id": "CTR2_YEAST", "protein_name": "Copper transport protein CTR2", "refseq_ac": "NP_012045", "refseq_name": "low-affinity Cu transporter", "gene_name": "CTR2", "gene_names_uniprotkb": "CTR2", "gene_names_refseq": "CTR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38865", "url": "https://www.uniprot.org/uniprotkb/P38865" } ], "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": "P38865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38865" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001218", "url": "https://www.yeastgenome.org/locus/S000001218", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38865", "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": "DDKKTWSTVTLRTFNQLVTS", "down_seq": "LIGYSKKMDSMNHKMEGNAG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001218", "url": "https://www.yeastgenome.org/locus/S000001218" }, { "database": "iPTMnet", "id": "P38865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38865" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser22" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P38865-1.26.26", "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": "P38865-1.26.26", "start_pos": 26, "end_pos": 26, "uniprot_canonical_ac": "P38865-1", "length": 189, "uniprot_id": "CTR2_YEAST", "protein_name": "Copper transport protein CTR2", "refseq_ac": "NP_012045", "refseq_name": "low-affinity Cu transporter", "gene_name": "CTR2", "gene_names_uniprotkb": "CTR2", "gene_names_refseq": "CTR2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38865", "url": "https://www.uniprot.org/uniprotkb/P38865" } ], "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": "P38865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38865" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001218", "url": "https://www.yeastgenome.org/locus/S000001218", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38865", "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": "TWSTVTLRTFNQLVTSSLIG", "down_seq": "SKKMDSMNHKMEGNAGHDHS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001218", "url": "https://www.yeastgenome.org/locus/S000001218" }, { "database": "iPTMnet", "id": "P38865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38865" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr26" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "22", "end_pos": "22" }, { "start_pos": "26", "end_pos": "26" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38865-1.22.22", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38866-1.345.345", "start_pos": 345, "end_pos": 345, "uniprot_canonical_ac": "P38866-1", "length": 432, "uniprot_id": "FMO1_YEAST", "protein_name": "Thiol-specific monooxygenase", "refseq_ac": "NP_012046", "refseq_name": "N,N-dimethylaniline monooxygenase", "gene_name": "FMO1", "gene_names_uniprotkb": "FMO1", "gene_names_refseq": "FMO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38866", "url": "https://www.uniprot.org/uniprotkb/P38866" } ], "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": "P38866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38866" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001219", "url": "https://www.yeastgenome.org/locus/S000001219", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38866", "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": "PLSELQAAIMVEVFCKSLPI", "down_seq": "TTFDSNACGTHNFPKGKDLE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001219", "url": "https://www.yeastgenome.org/locus/S000001219" }, { "database": "iPTMnet", "id": "P38866", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38866" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr345" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "345", "end_pos": "345" } ] } ], "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": "P38885-1.187.187", "start_pos": 187, "end_pos": 187, "uniprot_canonical_ac": "P38885-1", "length": 310, "uniprot_id": "AIM46_YEAST", "protein_name": "Altered inheritance of mitochondria protein 46, mitochondrial", "refseq_ac": "NP_012069", "refseq_name": "Aim46p", "gene_name": "AIM46", "gene_names_uniprotkb": "AIM46; FMP34", "gene_names_refseq": "AIM46; FMP34", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38885", "url": "https://www.uniprot.org/uniprotkb/P38885" } ], "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": "P38885", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38885" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P38885", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38885", "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": "DPAKAPILINNLLDSGIRLM", "down_seq": "KNTPIKAGSFKLLMDGTKKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38885", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38885" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser187" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38885-1.190.190", "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": "P38885-1.190.190", "start_pos": 190, "end_pos": 190, "uniprot_canonical_ac": "P38885-1", "length": 310, "uniprot_id": "AIM46_YEAST", "protein_name": "Altered inheritance of mitochondria protein 46, mitochondrial", "refseq_ac": "NP_012069", "refseq_name": "Aim46p", "gene_name": "AIM46", "gene_names_uniprotkb": "AIM46; FMP34", "gene_names_refseq": "AIM46; FMP34", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38885", "url": "https://www.uniprot.org/uniprotkb/P38885" } ], "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": "P38885", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38885" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P38885", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38885", "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": "KAPILINNLLDSGIRLMSKN", "down_seq": "PIKAGSFKLLMDGTKKSVLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38885", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38885" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr190" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38885-1.187.187", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38892-1.41.41", "start_pos": 41, "end_pos": 41, "uniprot_canonical_ac": "P38892-1", "length": 291, "uniprot_id": "CRG1_YEAST", "protein_name": "Probable S-adenosylmethionine-dependent methyltransferase CRG1", "refseq_ac": "NP_012079", "refseq_name": "S-adenosylmethionine-dependent methyltransferase", "gene_name": "CRG1", "gene_names_uniprotkb": "CRG1", "gene_names_refseq": "CRG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38892", "url": "https://www.uniprot.org/uniprotkb/P38892" } ], "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": "P38892", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38892" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001252", "url": "https://www.yeastgenome.org/locus/S000001252", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38892", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38892", "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": "PSYPLSLVNEIMKFHKGTRK", "down_seq": "LVDIGCGTGKATFVVEPYFK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001252", "url": "https://www.yeastgenome.org/locus/S000001252" }, { "database": "iPTMnet", "id": "P38892", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38892" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser41" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "41", "end_pos": "41" } ] } ], "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": "P38904-1.1014.1014", "start_pos": 1014, "end_pos": 1014, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "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": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "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": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904", "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "database": "iPTMnet", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "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": "IAVSTIEPSQDKLELTKRAE", "down_seq": "VEPVENNVETAKETQSVQEI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" }, { "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "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": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "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": "Ser1014" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "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": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38904-1.1067.1067", "start_pos": 1067, "end_pos": 1067, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "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": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "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": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "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": "TLTEDKTNGDPKNEKRILIE", "down_seq": "PVEKTDKKKPGEKIATDLNE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "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": "Ser1067" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38904-1.1090.1090", "start_pos": 1090, "end_pos": 1090, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "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": "EKTDKKKPGEKIATDLNEDA", "down_seq": "LSDKKDGDEKSTLHSDAAQL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1090" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38904-1.1092.1092", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38904-1.1105.1105", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38904-1.1092.1092", "start_pos": 1092, "end_pos": 1092, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "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": "TDKKKPGEKIATDLNEDASL", "down_seq": "DKKDGDEKSTLHSDAAQLTG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1092" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38904-1.1090.1090", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38904-1.1105.1105", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38904-1.1105.1105", "start_pos": 1105, "end_pos": 1105, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "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": "LNEDASLSDKKDGDEKSTLH", "down_seq": "DAAQLTGNEPDSVNTTTGKP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser1105" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38904-1.1090.1090", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38904-1.1092.1092", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38904-1.1252.1252", "start_pos": 1252, "end_pos": 1252, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "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": "VPPSGRCITKAKRVRRIKKL", "down_seq": "ADATTAPEADGKANSESITY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1252" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "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": "P38904-1.1303.1303", "start_pos": 1303, "end_pos": 1303, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "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": "QSKRSVVLKFAKARLTEAEL", "down_seq": "CLKKEINNVRKRRWREMNST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1303" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "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": "P38904-1.155.155", "start_pos": 155, "end_pos": 155, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "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": "QQEILKSDGEPLRENTERRV", "down_seq": "TSQHHPSQRTDDALDQDDEN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser155" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "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": "P38904-1.333.333", "start_pos": 333, "end_pos": 333, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "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": "EATLKAFENELLSSAPTEEP", "down_seq": "QEQSIGPVSSRKAVEPPRKP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser333" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "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": "P38904-1.393.393", "start_pos": 393, "end_pos": 393, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "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": "PQEKKKTKSKTSKAASTANK", "down_seq": "PASESTSKKKKKKKTVKESN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "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": "Ser393" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "upstream", "id": "P38904-1.412.412", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38904-1.412.412", "start_pos": 412, "end_pos": 412, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "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": "KSPASESTSKKKKKKKTVKE", "down_seq": "NKSQEAYEDDEFSRILADMV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser412" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38904-1.393.393", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38904-1.425.425", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38904-1.425.425", "start_pos": 425, "end_pos": 425, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "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": "KKKTVKESNKSQEAYEDDEF", "down_seq": "RILADMVNQVVNTSLKETST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser425" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38904-1.412.412", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38904-1.519.519", "start_pos": 519, "end_pos": 519, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "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": "NDDEFDENIVEDFNRGLGDL", "down_seq": "VSDLLPHDNLSRMEKKSVPK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser519" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "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": "P38904-1.563.563", "start_pos": 563, "end_pos": 563, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "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": "KSEKKTAISRRASKKASRDA", "down_seq": "SVELTEVPSKPKKPSKTEVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser563" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38904-1.564.564", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38904-1.564.564", "start_pos": 564, "end_pos": 564, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "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": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "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": "SEKKTAISRRASKKASRDAS", "down_seq": "VELTEVPSKPKKPSKTEVSL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser564" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38904-1.563.563", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38904-1.592.592", "start_pos": 592, "end_pos": 592, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "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": "SKPKKPSKTEVSLEKKLRKK", "down_seq": "VSIANEAASVARKKRWAKNK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Tyr592" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "upstream", "id": "P38904-1.601.601", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38904-1.601.601", "start_pos": 601, "end_pos": 601, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "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": "EVSLEKKLRKKYVSIANEAA", "down_seq": "VARKKRWAKNKELKEKEKLE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser601" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38904-1.592.592", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38904-1.685.685", "start_pos": 685, "end_pos": 685, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "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": "KSGKPKKPYRRWTPEELLKR", "down_seq": "QEAEKPRKVKKERKKKEKKM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser685" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "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": "P38904-1.748.748", "start_pos": 748, "end_pos": 748, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "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": "SARHRLNDIEGSLSTIGLHK", "down_seq": "PDGVRRILSRPKSEDHEWPL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser748" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "upstream", "id": "P38904-1.761.761", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38904-1.761.761", "start_pos": 761, "end_pos": 761, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "SUMO is a pervasive regulator of meiosis.", "journal": "eLife", "date": "2021-01-27", "authors": "Bhagwat Nikhil R, Owens Shannon N, Ito Masaru, Boinapalli Jay V, Poa Philip, Ditzel Alexander, Kopparapu Srujan, Mahalawat Meghan, Davies Owen Richard, Collins Sean R, Johnson Jeffrey R, Krogan Nevan J, Hunter Neil", "evidence": [ { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ] } ], "crossref": [ { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "STIGLHKSPDGVRRILSRPK", "down_seq": "EDHEWPLSDSSASQNYDAHL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ], "site_lbl": "Ser761" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38904-1.748.748", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38904-1.769.769", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38904-1.771.771", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38904-1.769.769", "start_pos": 769, "end_pos": 769, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "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": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "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": "PDGVRRILSRPKSEDHEWPL", "down_seq": "DSSASQNYDAHLKTVVHKEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser769" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38904-1.761.761", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38904-1.771.771", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38904-1.771.771", "start_pos": 771, "end_pos": 771, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "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": "GVRRILSRPKSEDHEWPLSD", "down_seq": "SASQNYDAHLKTVVHKEKIP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser771" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38904-1.761.761", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38904-1.769.769", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38904-1.947.947", "start_pos": 947, "end_pos": 947, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "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": "FNTSRVKQQLDKQLPARSAG", "down_seq": "EISSSESPDKATPDPHSNST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr947" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38904-1.950.950", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38904-1.951.951", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38904-1.952.952", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38904-1.954.954", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38904-1.950.950", "start_pos": 950, "end_pos": 950, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "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": "SRVKQQLDKQLPARSAGTEI", "down_seq": "SSESPDKATPDPHSNSTIAG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser950" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38904-1.947.947", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38904-1.951.951", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38904-1.952.952", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38904-1.954.954", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38904-1.951.951", "start_pos": 951, "end_pos": 951, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "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": "RVKQQLDKQLPARSAGTEIS", "down_seq": "SESPDKATPDPHSNSTIAGH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser951" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38904-1.947.947", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38904-1.950.950", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38904-1.952.952", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38904-1.954.954", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38904-1.952.952", "start_pos": 952, "end_pos": 952, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "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": "VKQQLDKQLPARSAGTEISS", "down_seq": "ESPDKATPDPHSNSTIAGHT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser952" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38904-1.947.947", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38904-1.950.950", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38904-1.951.951", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38904-1.954.954", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38904-1.954.954", "start_pos": 954, "end_pos": 954, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "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": "QQLDKQLPARSAGTEISSSE", "down_seq": "PDKATPDPHSNSTIAGHTLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser954" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38904-1.947.947", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38904-1.950.950", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38904-1.951.951", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38904-1.952.952", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38904-1.977.977", "start_pos": 977, "end_pos": 977, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "SUMO is a pervasive regulator of meiosis.", "journal": "eLife", "date": "2021-01-27", "authors": "Bhagwat Nikhil R, Owens Shannon N, Ito Masaru, Boinapalli Jay V, Poa Philip, Ditzel Alexander, Kopparapu Srujan, Mahalawat Meghan, Davies Owen Richard, Collins Sean R, Johnson Jeffrey R, Krogan Nevan J, Hunter Neil", "evidence": [ { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ] } ], "crossref": [ { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "KATPDPHSNSTIAGHTLKGV", "down_seq": "TPIKIEDSDANVPPVSIAVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ], "site_lbl": "Thr977" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38904-1.978.978", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38904-1.985.985", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38904-1.978.978", "start_pos": 978, "end_pos": 978, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "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": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "SUMO is a pervasive regulator of meiosis.", "journal": "eLife", "date": "2021-01-27", "authors": "Bhagwat Nikhil R, Owens Shannon N, Ito Masaru, Boinapalli Jay V, Poa Philip, Ditzel Alexander, Kopparapu Srujan, Mahalawat Meghan, Davies Owen Richard, Collins Sean R, Johnson Jeffrey R, Krogan Nevan J, Hunter Neil", "evidence": [ { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ] } ], "crossref": [ { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ATPDPHSNSTIAGHTLKGVT", "down_seq": "PIKIEDSDANVPPVSIAVST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ], "site_lbl": "Thr978" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38904-1.977.977", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38904-1.985.985", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38904-1.985.985", "start_pos": 985, "end_pos": 985, "uniprot_canonical_ac": "P38904-1", "length": 1435, "uniprot_id": "SPP41_YEAST", "protein_name": "Protein SPP41", "refseq_ac": "NP_010752", "refseq_name": "Spp41p", "gene_name": "SPP41", "gene_names_uniprotkb": "SPP41", "gene_names_refseq": "SPP41", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38904", "url": "https://www.uniprot.org/uniprotkb/P38904" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "SUMO is a pervasive regulator of meiosis.", "journal": "eLife", "date": "2021-01-27", "authors": "Bhagwat Nikhil R, Owens Shannon N, Ito Masaru, Boinapalli Jay V, Poa Philip, Ditzel Alexander, Kopparapu Srujan, Mahalawat Meghan, Davies Owen Richard, Collins Sean R, Johnson Jeffrey R, Krogan Nevan J, Hunter Neil", "evidence": [ { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" } ], "reference": [ { "type": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ] } ], "crossref": [ { "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NSTIAGHTLKGVTTPIKIED", "down_seq": "DANVPPVSIAVSTIEPSQDK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002872", "url": "https://www.yeastgenome.org/locus/S000002872" }, { "database": "iPTMnet", "id": "P38904", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38904" }, { "database": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ], "site_lbl": "Ser985" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1105", "end_pos": "1105" }, { "start_pos": "1252", "end_pos": "1252" }, { "start_pos": "1303", "end_pos": "1303" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "947", "end_pos": "947" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "978", "end_pos": "978" }, { "start_pos": "985", "end_pos": "985" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38904-1.977.977", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38904-1.978.978", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38913-1.270.270", "start_pos": 270, "end_pos": 270, "uniprot_canonical_ac": "P38913-1", "length": 306, "uniprot_id": "FAD1_YEAST", "protein_name": "FAD synthase", "refseq_ac": "NP_010239", "refseq_name": "FMN adenylyltransferase", "gene_name": "FAD1", "gene_names_uniprotkb": "FAD1; D2702", "gene_names_refseq": "FAD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38913", "url": "https://www.uniprot.org/uniprotkb/P38913" } ], "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": "P38913", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38913" } ], "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": "P38913", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38913" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002203", "url": "https://www.yeastgenome.org/locus/S000002203", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38913", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38913", "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": "EIIHAFGKDAEGERSSAINT", "down_seq": "PISVVDKERFSKYHDNYYPG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002203", "url": "https://www.yeastgenome.org/locus/S000002203" }, { "database": "iPTMnet", "id": "P38913", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38913" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser270" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "270", "end_pos": "270" }, { "start_pos": "273", "end_pos": "273" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38913-1.273.273", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38913-1.273.273", "start_pos": 273, "end_pos": 273, "uniprot_canonical_ac": "P38913-1", "length": 306, "uniprot_id": "FAD1_YEAST", "protein_name": "FAD synthase", "refseq_ac": "NP_010239", "refseq_name": "FMN adenylyltransferase", "gene_name": "FAD1", "gene_names_uniprotkb": "FAD1; D2702", "gene_names_refseq": "FAD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38913", "url": "https://www.uniprot.org/uniprotkb/P38913" } ], "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": "P38913", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38913" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002203", "url": "https://www.yeastgenome.org/locus/S000002203", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38913", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38913", "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": "HAFGKDAEGERSSAINTSPI", "down_seq": "VVDKERFSKYHDNYYPGWYL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002203", "url": "https://www.yeastgenome.org/locus/S000002203" }, { "database": "iPTMnet", "id": "P38913", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38913" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser273" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "270", "end_pos": "270" }, { "start_pos": "273", "end_pos": "273" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38913-1.270.270", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38962-1.185.185", "start_pos": 185, "end_pos": 185, "uniprot_canonical_ac": "P38962-1", "length": 199, "uniprot_id": "TVP23_YEAST", "protein_name": "Golgi apparatus membrane protein TVP23", "refseq_ac": "NP_010369", "refseq_name": "Tvp23p", "gene_name": "TVP23", "gene_names_uniprotkb": "TVP23; D4466", "gene_names_refseq": "TVP23", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38962", "url": "https://www.uniprot.org/uniprotkb/P38962" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38962", "url": "https://www.uniprot.org/uniprotkb/P38962", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "PRU00498", "url": "https://prosite.expasy.org/rule/PRU00498", "database": "PROSITE-ProRule", "categories": [ "Other" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "QSDGQDTNNWFALPSVPGFE", "down_seq": "LSRLANIQSFFQRQ", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn185", "evidence": [ { "id": "P38962", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38962#ptm_processing" }, { "id": "PRU00498", "database": "PROSITE-ProRule", "url": "https://prosite.expasy.org/rule/PRU00498" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "185", "end_pos": "185" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "86", "end_pos": "86" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38962-1.63.63", "start_pos": 63, "end_pos": 63, "uniprot_canonical_ac": "P38962-1", "length": 199, "uniprot_id": "TVP23_YEAST", "protein_name": "Golgi apparatus membrane protein TVP23", "refseq_ac": "NP_010369", "refseq_name": "Tvp23p", "gene_name": "TVP23", "gene_names_uniprotkb": "TVP23; D4466", "gene_names_refseq": "TVP23", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38962", "url": "https://www.uniprot.org/uniprotkb/P38962" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38962", "url": "https://www.uniprot.org/uniprotkb/P38962", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "PRU00498", "url": "https://prosite.expasy.org/rule/PRU00498", "database": "PROSITE-ProRule", "categories": [ "Other" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "FTPQFITVVLLLSFDFYLTK", "down_seq": "ITGRKLVQLRWWYDSTDVNK", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn63", "evidence": [ { "id": "P38962", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38962#ptm_processing" }, { "id": "PRU00498", "database": "PROSITE-ProRule", "url": "https://prosite.expasy.org/rule/PRU00498" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "185", "end_pos": "185" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "86", "end_pos": "86" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38962-1.86.86", "start_pos": 86, "end_pos": 86, "uniprot_canonical_ac": "P38962-1", "length": 199, "uniprot_id": "TVP23_YEAST", "protein_name": "Golgi apparatus membrane protein TVP23", "refseq_ac": "NP_010369", "refseq_name": "Tvp23p", "gene_name": "TVP23", "gene_names_uniprotkb": "TVP23; D4466", "gene_names_refseq": "TVP23", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38962", "url": "https://www.uniprot.org/uniprotkb/P38962" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38962", "url": "https://www.uniprot.org/uniprotkb/P38962", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "PRU00498", "url": "https://prosite.expasy.org/rule/PRU00498", "database": "PROSITE-ProRule", "categories": [ "Other" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "GRKLVQLRWWYDSTDVNKDS", "down_seq": "FTFESYKQYAPGPPINAIDS", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn86", "evidence": [ { "id": "P38962", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38962#ptm_processing" }, { "id": "PRU00498", "database": "PROSITE-ProRule", "url": "https://prosite.expasy.org/rule/PRU00498" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "185", "end_pos": "185" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "86", "end_pos": "86" } ] } ], "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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_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_n_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": "P38966-1.214.214", "start_pos": 214, "end_pos": 214, "uniprot_canonical_ac": "P38966-1", "length": 869, "uniprot_id": "VTC5_YEAST", "protein_name": "Vacuole transporter chaperone complex subunit 5", "refseq_ac": "NP_010374", "refseq_name": "Vtc5p", "gene_name": "VTC5", "gene_names_uniprotkb": "VTC5; D4495; YD8554.22", "gene_names_refseq": "VTC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966", "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": "VLHDLENKLEDATEPAVEQR", "down_seq": "LNRSDESAHTSSSPEANNSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser214" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "214", "end_pos": "214" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "662", "end_pos": "662" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "760", "end_pos": "760" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P38966-1.218.218", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38966-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38966-1.233.233", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38966-1.234.234", "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": "P38966-1.218.218", "start_pos": 218, "end_pos": 218, "uniprot_canonical_ac": "P38966-1", "length": 869, "uniprot_id": "VTC5_YEAST", "protein_name": "Vacuole transporter chaperone complex subunit 5", "refseq_ac": "NP_010374", "refseq_name": "Vtc5p", "gene_name": "VTC5", "gene_names_uniprotkb": "VTC5; D4495; YD8554.22", "gene_names_refseq": "VTC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966", "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": "LENKLEDATEPAVEQRSLNR", "down_seq": "DESAHTSSSPEANNSSLPAS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser218" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "214", "end_pos": "214" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "662", "end_pos": "662" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "760", "end_pos": "760" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38966-1.214.214", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38966-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38966-1.233.233", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38966-1.234.234", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38966-1.238.238", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38966-1.227.227", "start_pos": 227, "end_pos": 227, "uniprot_canonical_ac": "P38966-1", "length": 869, "uniprot_id": "VTC5_YEAST", "protein_name": "Vacuole transporter chaperone complex subunit 5", "refseq_ac": "NP_010374", "refseq_name": "Vtc5p", "gene_name": "VTC5", "gene_names_uniprotkb": "VTC5; D4495; YD8554.22", "gene_names_refseq": "VTC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966", "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": "EPAVEQRSLNRSDESAHTSS", "down_seq": "PEANNSSLPASPRSIPLLSN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser227" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "214", "end_pos": "214" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "662", "end_pos": "662" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "760", "end_pos": "760" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38966-1.214.214", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38966-1.218.218", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38966-1.233.233", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38966-1.234.234", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38966-1.238.238", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38966-1.241.241", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38966-1.233.233", "start_pos": 233, "end_pos": 233, "uniprot_canonical_ac": "P38966-1", "length": 869, "uniprot_id": "VTC5_YEAST", "protein_name": "Vacuole transporter chaperone complex subunit 5", "refseq_ac": "NP_010374", "refseq_name": "Vtc5p", "gene_name": "VTC5", "gene_names_uniprotkb": "VTC5; D4495; YD8554.22", "gene_names_refseq": "VTC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966", "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": "RSLNRSDESAHTSSSPEANN", "down_seq": "SLPASPRSIPLLSNKKTSKM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser233" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "214", "end_pos": "214" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "662", "end_pos": "662" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "760", "end_pos": "760" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38966-1.214.214", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38966-1.218.218", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38966-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38966-1.234.234", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38966-1.238.238", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38966-1.241.241", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38966-1.234.234", "start_pos": 234, "end_pos": 234, "uniprot_canonical_ac": "P38966-1", "length": 869, "uniprot_id": "VTC5_YEAST", "protein_name": "Vacuole transporter chaperone complex subunit 5", "refseq_ac": "NP_010374", "refseq_name": "Vtc5p", "gene_name": "VTC5", "gene_names_uniprotkb": "VTC5; D4495; YD8554.22", "gene_names_refseq": "VTC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966", "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": "SLNRSDESAHTSSSPEANNS", "down_seq": "LPASPRSIPLLSNKKTSKMI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" }, { "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": "Ser234" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "214", "end_pos": "214" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "662", "end_pos": "662" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "760", "end_pos": "760" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38966-1.214.214", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38966-1.218.218", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38966-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38966-1.233.233", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38966-1.238.238", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38966-1.241.241", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38966-1.238.238", "start_pos": 238, "end_pos": 238, "uniprot_canonical_ac": "P38966-1", "length": 869, "uniprot_id": "VTC5_YEAST", "protein_name": "Vacuole transporter chaperone complex subunit 5", "refseq_ac": "NP_010374", "refseq_name": "Vtc5p", "gene_name": "VTC5", "gene_names_uniprotkb": "VTC5; D4495; YD8554.22", "gene_names_refseq": "VTC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" } ], "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": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966", "database": "iPTMnet", "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": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496", "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": "SDESAHTSSSPEANNSSLPA", "down_seq": "PRSIPLLSNKKTSKMIDSSL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" }, { "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": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496" }, { "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": "Ser238" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "214", "end_pos": "214" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "662", "end_pos": "662" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "760", "end_pos": "760" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38966-1.218.218", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38966-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38966-1.233.233", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38966-1.234.234", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38966-1.241.241", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38966-1.241.241", "start_pos": 241, "end_pos": 241, "uniprot_canonical_ac": "P38966-1", "length": 869, "uniprot_id": "VTC5_YEAST", "protein_name": "Vacuole transporter chaperone complex subunit 5", "refseq_ac": "NP_010374", "refseq_name": "Vtc5p", "gene_name": "VTC5", "gene_names_uniprotkb": "VTC5; D4495; YD8554.22", "gene_names_refseq": "VTC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" } ], "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": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966", "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": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496", "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": "SAHTSSSPEANNSSLPASPR", "down_seq": "IPLLSNKKTSKMIDSSLEFD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" }, { "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": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496" }, { "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": "Ser241" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "214", "end_pos": "214" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "662", "end_pos": "662" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "760", "end_pos": "760" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38966-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38966-1.233.233", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38966-1.234.234", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38966-1.238.238", "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38966-1.316.316", "start_pos": 316, "end_pos": 316, "uniprot_canonical_ac": "P38966-1", "length": 869, "uniprot_id": "VTC5_YEAST", "protein_name": "Vacuole transporter chaperone complex subunit 5", "refseq_ac": "NP_010374", "refseq_name": "Vtc5p", "gene_name": "VTC5", "gene_names_uniprotkb": "VTC5; D4495; YD8554.22", "gene_names_refseq": "VTC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" } ], "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": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966", "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966", "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": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496", "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": "IDDSIISTSKEILDTTDNIN", "down_seq": "AGNKSIRSAKSFNDLQHTLS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" }, { "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": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496" }, { "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": "Ser316" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "214", "end_pos": "214" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "662", "end_pos": "662" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "760", "end_pos": "760" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P38966-1.321.321", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38966-1.324.324", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38966-1.327.327", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38966-1.334.334", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38966-1.336.336", "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38966-1.321.321", "start_pos": 321, "end_pos": 321, "uniprot_canonical_ac": "P38966-1", "length": 869, "uniprot_id": "VTC5_YEAST", "protein_name": "Vacuole transporter chaperone complex subunit 5", "refseq_ac": "NP_010374", "refseq_name": "Vtc5p", "gene_name": "VTC5", "gene_names_uniprotkb": "VTC5; D4495; YD8554.22", "gene_names_refseq": "VTC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" } ], "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": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496", "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": "ISTSKEILDTTDNINSAGNK", "down_seq": "IRSAKSFNDLQHTLSLSKQK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496" }, { "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": "Ser321" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "214", "end_pos": "214" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "662", "end_pos": "662" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "760", "end_pos": "760" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38966-1.316.316", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38966-1.324.324", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38966-1.327.327", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38966-1.334.334", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38966-1.336.336", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38966-1.338.338", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38966-1.324.324", "start_pos": 324, "end_pos": 324, "uniprot_canonical_ac": "P38966-1", "length": 869, "uniprot_id": "VTC5_YEAST", "protein_name": "Vacuole transporter chaperone complex subunit 5", "refseq_ac": "NP_010374", "refseq_name": "Vtc5p", "gene_name": "VTC5", "gene_names_uniprotkb": "VTC5; D4495; YD8554.22", "gene_names_refseq": "VTC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" } ], "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": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496", "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": "SKEILDTTDNINSAGNKSIR", "down_seq": "AKSFNDLQHTLSLSKQKNIL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser324" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "214", "end_pos": "214" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "662", "end_pos": "662" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "760", "end_pos": "760" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38966-1.316.316", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38966-1.321.321", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38966-1.327.327", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38966-1.334.334", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38966-1.336.336", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38966-1.338.338", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38966-1.327.327", "start_pos": 327, "end_pos": 327, "uniprot_canonical_ac": "P38966-1", "length": 869, "uniprot_id": "VTC5_YEAST", "protein_name": "Vacuole transporter chaperone complex subunit 5", "refseq_ac": "NP_010374", "refseq_name": "Vtc5p", "gene_name": "VTC5", "gene_names_uniprotkb": "VTC5; D4495; YD8554.22", "gene_names_refseq": "VTC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" } ], "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": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "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": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966", "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "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": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496", "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": "ILDTTDNINSAGNKSIRSAK", "down_seq": "FNDLQHTLSLSKQKNILPSA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "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": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496" }, { "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": "Ser327" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "214", "end_pos": "214" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "662", "end_pos": "662" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "760", "end_pos": "760" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38966-1.316.316", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38966-1.321.321", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38966-1.324.324", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38966-1.334.334", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38966-1.336.336", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38966-1.338.338", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38966-1.334.334", "start_pos": 334, "end_pos": 334, "uniprot_canonical_ac": "P38966-1", "length": 869, "uniprot_id": "VTC5_YEAST", "protein_name": "Vacuole transporter chaperone complex subunit 5", "refseq_ac": "NP_010374", "refseq_name": "Vtc5p", "gene_name": "VTC5", "gene_names_uniprotkb": "VTC5; D4495; YD8554.22", "gene_names_refseq": "VTC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" } ], "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": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496", "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": "INSAGNKSIRSAKSFNDLQH", "down_seq": "LSLSKQKNILPSAVQSNEKY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr334" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "214", "end_pos": "214" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "662", "end_pos": "662" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "760", "end_pos": "760" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38966-1.316.316", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38966-1.321.321", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38966-1.324.324", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38966-1.327.327", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38966-1.336.336", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38966-1.338.338", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38966-1.336.336", "start_pos": 336, "end_pos": 336, "uniprot_canonical_ac": "P38966-1", "length": 869, "uniprot_id": "VTC5_YEAST", "protein_name": "Vacuole transporter chaperone complex subunit 5", "refseq_ac": "NP_010374", "refseq_name": "Vtc5p", "gene_name": "VTC5", "gene_names_uniprotkb": "VTC5; D4495; YD8554.22", "gene_names_refseq": "VTC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" } ], "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": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496", "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": "SAGNKSIRSAKSFNDLQHTL", "down_seq": "LSKQKNILPSAVQSNEKYVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496" }, { "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": "phosphorylation", "site_list": [ { "start_pos": "214", "end_pos": "214" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "662", "end_pos": "662" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "760", "end_pos": "760" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38966-1.316.316", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38966-1.321.321", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38966-1.324.324", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38966-1.327.327", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38966-1.334.334", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38966-1.338.338", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38966-1.338.338", "start_pos": 338, "end_pos": 338, "uniprot_canonical_ac": "P38966-1", "length": 869, "uniprot_id": "VTC5_YEAST", "protein_name": "Vacuole transporter chaperone complex subunit 5", "refseq_ac": "NP_010374", "refseq_name": "Vtc5p", "gene_name": "VTC5", "gene_names_uniprotkb": "VTC5; D4495; YD8554.22", "gene_names_refseq": "VTC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966", "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": "GNKSIRSAKSFNDLQHTLSL", "down_seq": "KQKNILPSAVQSNEKYVSIS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser338" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "214", "end_pos": "214" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "662", "end_pos": "662" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "760", "end_pos": "760" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38966-1.321.321", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38966-1.324.324", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38966-1.327.327", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38966-1.334.334", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38966-1.336.336", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38966-1.43.43", "start_pos": 43, "end_pos": 43, "uniprot_canonical_ac": "P38966-1", "length": 869, "uniprot_id": "VTC5_YEAST", "protein_name": "Vacuole transporter chaperone complex subunit 5", "refseq_ac": "NP_010374", "refseq_name": "Vtc5p", "gene_name": "VTC5", "gene_names_uniprotkb": "VTC5; D4495; YD8554.22", "gene_names_refseq": "VTC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" } ], "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": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EKLKVAIKKVTAYDYDNPND", "down_seq": "GMEKLLNQCSVAFDQEFQNV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496" } ], "site_lbl": "Ser43" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "214", "end_pos": "214" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "662", "end_pos": "662" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "760", "end_pos": "760" } ] } ], "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": "P38966-1.513.513", "start_pos": 513, "end_pos": 513, "uniprot_canonical_ac": "P38966-1", "length": 869, "uniprot_id": "VTC5_YEAST", "protein_name": "Vacuole transporter chaperone complex subunit 5", "refseq_ac": "NP_010374", "refseq_name": "Vtc5p", "gene_name": "VTC5", "gene_names_uniprotkb": "VTC5; D4495; YD8554.22", "gene_names_refseq": "VTC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966", "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": "VSTLPFPILEIKKLSRSSGL", "down_seq": "QTAINEDNKFKQLMKSVVTN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" }, { "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": "Ser513" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "214", "end_pos": "214" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "662", "end_pos": "662" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "760", "end_pos": "760" } ] } ], "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": "P38966-1.606.606", "start_pos": 606, "end_pos": 606, "uniprot_canonical_ac": "P38966-1", "length": 869, "uniprot_id": "VTC5_YEAST", "protein_name": "Vacuole transporter chaperone complex subunit 5", "refseq_ac": "NP_010374", "refseq_name": "Vtc5p", "gene_name": "VTC5", "gene_names_uniprotkb": "VTC5; D4495; YD8554.22", "gene_names_refseq": "VTC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" } ], "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": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496", "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": "FQLGKDRLEEEFDLTGPINN", "down_seq": "QGSVDSGRRVRIHKKSKQSD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser606" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "214", "end_pos": "214" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "662", "end_pos": "662" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "760", "end_pos": "760" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38966-1.609.609", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38966-1.612.612", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38966-1.609.609", "start_pos": 609, "end_pos": 609, "uniprot_canonical_ac": "P38966-1", "length": 869, "uniprot_id": "VTC5_YEAST", "protein_name": "Vacuole transporter chaperone complex subunit 5", "refseq_ac": "NP_010374", "refseq_name": "Vtc5p", "gene_name": "VTC5", "gene_names_uniprotkb": "VTC5; D4495; YD8554.22", "gene_names_refseq": "VTC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" } ], "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": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GKDRLEEEFDLTGPINNSQG", "down_seq": "VDSGRRVRIHKKSKQSDNET", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" }, { "database": "SGD", "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496" } ], "site_lbl": "Ser609" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "214", "end_pos": "214" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "662", "end_pos": "662" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "760", "end_pos": "760" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38966-1.606.606", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38966-1.612.612", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38966-1.612.612", "start_pos": 612, "end_pos": 612, "uniprot_canonical_ac": "P38966-1", "length": 869, "uniprot_id": "VTC5_YEAST", "protein_name": "Vacuole transporter chaperone complex subunit 5", "refseq_ac": "NP_010374", "refseq_name": "Vtc5p", "gene_name": "VTC5", "gene_names_uniprotkb": "VTC5; D4495; YD8554.22", "gene_names_refseq": "VTC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" } ], "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": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496", "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": "RLEEEFDLTGPINNSQGSVD", "down_seq": "GRRVRIHKKSKQSDNETKKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" }, { "database": "SGD", "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496" }, { "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": "Ser612" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "214", "end_pos": "214" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "662", "end_pos": "662" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "760", "end_pos": "760" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38966-1.606.606", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38966-1.609.609", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38966-1.661.661", "start_pos": 661, "end_pos": 661, "uniprot_canonical_ac": "P38966-1", "length": 869, "uniprot_id": "VTC5_YEAST", "protein_name": "Vacuole transporter chaperone complex subunit 5", "refseq_ac": "NP_010374", "refseq_name": "Vtc5p", "gene_name": "VTC5", "gene_names_uniprotkb": "VTC5; D4495; YD8554.22", "gene_names_refseq": "VTC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966", "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": "DEQEEDNLDNAFYIDTNGSR", "down_seq": "TTDNEESLLLRNSPPDYGFI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser661" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "214", "end_pos": "214" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "662", "end_pos": "662" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "760", "end_pos": "760" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38966-1.662.662", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38966-1.663.663", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38966-1.668.668", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38966-1.674.674", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38966-1.662.662", "start_pos": 662, "end_pos": 662, "uniprot_canonical_ac": "P38966-1", "length": 869, "uniprot_id": "VTC5_YEAST", "protein_name": "Vacuole transporter chaperone complex subunit 5", "refseq_ac": "NP_010374", "refseq_name": "Vtc5p", "gene_name": "VTC5", "gene_names_uniprotkb": "VTC5; D4495; YD8554.22", "gene_names_refseq": "VTC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966", "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": "EQEEDNLDNAFYIDTNGSRS", "down_seq": "TDNEESLLLRNSPPDYGFIL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr662" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "214", "end_pos": "214" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "662", "end_pos": "662" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "760", "end_pos": "760" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38966-1.661.661", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38966-1.663.663", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38966-1.668.668", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38966-1.674.674", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38966-1.663.663", "start_pos": 663, "end_pos": 663, "uniprot_canonical_ac": "P38966-1", "length": 869, "uniprot_id": "VTC5_YEAST", "protein_name": "Vacuole transporter chaperone complex subunit 5", "refseq_ac": "NP_010374", "refseq_name": "Vtc5p", "gene_name": "VTC5", "gene_names_uniprotkb": "VTC5; D4495; YD8554.22", "gene_names_refseq": "VTC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966", "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": "QEEDNLDNAFYIDTNGSRST", "down_seq": "DNEESLLLRNSPPDYGFILF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr663" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "214", "end_pos": "214" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "662", "end_pos": "662" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "760", "end_pos": "760" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38966-1.661.661", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38966-1.662.662", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38966-1.668.668", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38966-1.674.674", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38966-1.668.668", "start_pos": 668, "end_pos": 668, "uniprot_canonical_ac": "P38966-1", "length": 869, "uniprot_id": "VTC5_YEAST", "protein_name": "Vacuole transporter chaperone complex subunit 5", "refseq_ac": "NP_010374", "refseq_name": "Vtc5p", "gene_name": "VTC5", "gene_names_uniprotkb": "VTC5; D4495; YD8554.22", "gene_names_refseq": "VTC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" } ], "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": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966", "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496", "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": "LDNAFYIDTNGSRSTTDNEE", "down_seq": "LLLRNSPPDYGFILFSRNFI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" }, { "database": "SGD", "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496" }, { "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": "Ser668" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "214", "end_pos": "214" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "662", "end_pos": "662" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "760", "end_pos": "760" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38966-1.661.661", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38966-1.662.662", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38966-1.663.663", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38966-1.674.674", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38966-1.674.674", "start_pos": 674, "end_pos": 674, "uniprot_canonical_ac": "P38966-1", "length": 869, "uniprot_id": "VTC5_YEAST", "protein_name": "Vacuole transporter chaperone complex subunit 5", "refseq_ac": "NP_010374", "refseq_name": "Vtc5p", "gene_name": "VTC5", "gene_names_uniprotkb": "VTC5; D4495; YD8554.22", "gene_names_refseq": "VTC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966", "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": "IDTNGSRSTTDNEESLLLRN", "down_seq": "PPDYGFILFSRNFINRTYDF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser674" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "214", "end_pos": "214" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "662", "end_pos": "662" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "760", "end_pos": "760" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38966-1.661.661", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38966-1.662.662", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38966-1.663.663", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38966-1.668.668", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38966-1.740.740", "start_pos": 740, "end_pos": 740, "uniprot_canonical_ac": "P38966-1", "length": 869, "uniprot_id": "VTC5_YEAST", "protein_name": "Vacuole transporter chaperone complex subunit 5", "refseq_ac": "NP_010374", "refseq_name": "Vtc5p", "gene_name": "VTC5", "gene_names_uniprotkb": "VTC5; D4495; YD8554.22", "gene_names_refseq": "VTC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966", "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": "HCSSTNYGSVASFGSQSTSA", "down_seq": "YDDVQRYLQYQQQDIEDSQS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser740" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "214", "end_pos": "214" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "662", "end_pos": "662" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "760", "end_pos": "760" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "upstream", "id": "P38966-1.760.760", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38966-1.760.760", "start_pos": 760, "end_pos": 760, "uniprot_canonical_ac": "P38966-1", "length": 869, "uniprot_id": "VTC5_YEAST", "protein_name": "Vacuole transporter chaperone complex subunit 5", "refseq_ac": "NP_010374", "refseq_name": "Vtc5p", "gene_name": "VTC5", "gene_names_uniprotkb": "VTC5; D4495; YD8554.22", "gene_names_refseq": "VTC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" } ], "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": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "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": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966", "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": "SYDDVQRYLQYQQQDIEDSQ", "down_seq": "IYEYRHDEVVTFLYLSALLT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38966", "url": "https://www.uniprot.org/uniprotkb/P38966" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002496", "url": "https://www.yeastgenome.org/locus/S000002496" }, { "database": "iPTMnet", "id": "P38966", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38966" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser760" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "214", "end_pos": "214" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "661", "end_pos": "661" }, { "start_pos": "662", "end_pos": "662" }, { "start_pos": "663", "end_pos": "663" }, { "start_pos": "668", "end_pos": "668" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "760", "end_pos": "760" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38966-1.740.740", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38972-1.471.471", "start_pos": 471, "end_pos": 471, "uniprot_canonical_ac": "P38972-1", "length": 1358, "uniprot_id": "PUR4_YEAST", "protein_name": "Phosphoribosylformylglycinamidine synthase", "refseq_ac": "NP_011575", "refseq_name": "phosphoribosylformylglycinamidine synthase", "gene_name": "ADE6", "gene_names_uniprotkb": "ADE6", "gene_names_refseq": "ADE6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38972", "url": "https://www.uniprot.org/uniprotkb/P38972" } ], "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": "MIAGGFGTVRPQFALKNTPI", "down_seq": "PGSCLIVLGGQSMLIGLGGG", "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": "Thr471", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "471", "end_pos": "471" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1262", "end_pos": "1262" }, { "start_pos": "1264", "end_pos": "1264" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "898", "end_pos": "898" } ] } ], "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": 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": "P38972-1.1088.1088", "start_pos": 1088, "end_pos": 1088, "uniprot_canonical_ac": "P38972-1", "length": 1358, "uniprot_id": "PUR4_YEAST", "protein_name": "Phosphoribosylformylglycinamidine synthase", "refseq_ac": "NP_011575", "refseq_name": "phosphoribosylformylglycinamidine synthase", "gene_name": "ADE6", "gene_names_uniprotkb": "ADE6", "gene_names_refseq": "ADE6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38972", "url": "https://www.uniprot.org/uniprotkb/P38972" } ], "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": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972", "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": "LQYALTYNPADDMKIGLELS", "down_seq": "QRPKVAILREQGVNGQMEMA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293" }, { "database": "iPTMnet", "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1088" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "471", "end_pos": "471" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1262", "end_pos": "1262" }, { "start_pos": "1264", "end_pos": "1264" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "898", "end_pos": "898" } ] } ], "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": "P38972-1.111.111", "start_pos": 111, "end_pos": 111, "uniprot_canonical_ac": "P38972-1", "length": 1358, "uniprot_id": "PUR4_YEAST", "protein_name": "Phosphoribosylformylglycinamidine synthase", "refseq_ac": "NP_011575", "refseq_name": "phosphoribosylformylglycinamidine synthase", "gene_name": "ADE6", "gene_names_uniprotkb": "ADE6", "gene_names_refseq": "ADE6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38972", "url": "https://www.uniprot.org/uniprotkb/P38972" } ], "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": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972", "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": "SSALGEDTYLIRVVPRSGTI", "down_seq": "PWSSKATNIAHVCGLQDKVQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293" }, { "database": "iPTMnet", "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser111" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "471", "end_pos": "471" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1262", "end_pos": "1262" }, { "start_pos": "1264", "end_pos": "1264" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "898", "end_pos": "898" } ] } ], "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": "P38972-1.1214.1214", "start_pos": 1214, "end_pos": 1214, "uniprot_canonical_ac": "P38972-1", "length": 1358, "uniprot_id": "PUR4_YEAST", "protein_name": "Phosphoribosylformylglycinamidine synthase", "refseq_ac": "NP_011575", "refseq_name": "phosphoribosylformylglycinamidine synthase", "gene_name": "ADE6", "gene_names_uniprotkb": "ADE6", "gene_names_refseq": "ADE6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38972", "url": "https://www.uniprot.org/uniprotkb/P38972" } ], "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": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972", "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": "SRLKDIIPGCENWPSFERNV", "down_seq": "EQYEARVCMVQISQEKDNSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293" }, { "database": "iPTMnet", "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1214" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "471", "end_pos": "471" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1262", "end_pos": "1262" }, { "start_pos": "1264", "end_pos": "1264" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "898", "end_pos": "898" } ] } ], "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": "P38972-1.1262.1262", "start_pos": 1262, "end_pos": 1262, "uniprot_canonical_ac": "P38972-1", "length": 1358, "uniprot_id": "PUR4_YEAST", "protein_name": "Phosphoribosylformylglycinamidine synthase", "refseq_ac": "NP_011575", "refseq_name": "phosphoribosylformylglycinamidine synthase", "gene_name": "ADE6", "gene_names_uniprotkb": "ADE6", "gene_names_refseq": "ADE6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38972", "url": "https://www.uniprot.org/uniprotkb/P38972" } ], "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": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972", "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": "GMAGSKLPIAVAHGEGKATF", "down_seq": "KSAEQLEKFEKDGLCCIRYV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293" }, { "database": "iPTMnet", "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1262" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "471", "end_pos": "471" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1262", "end_pos": "1262" }, { "start_pos": "1264", "end_pos": "1264" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "898", "end_pos": "898" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38972-1.1264.1264", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38972-1.1264.1264", "start_pos": 1264, "end_pos": 1264, "uniprot_canonical_ac": "P38972-1", "length": 1358, "uniprot_id": "PUR4_YEAST", "protein_name": "Phosphoribosylformylglycinamidine synthase", "refseq_ac": "NP_011575", "refseq_name": "phosphoribosylformylglycinamidine synthase", "gene_name": "ADE6", "gene_names_uniprotkb": "ADE6", "gene_names_refseq": "ADE6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38972", "url": "https://www.uniprot.org/uniprotkb/P38972" } ], "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": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972", "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": "AGSKLPIAVAHGEGKATFSK", "down_seq": "AEQLEKFEKDGLCCIRYVDN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293" }, { "database": "iPTMnet", "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1264" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "471", "end_pos": "471" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1262", "end_pos": "1262" }, { "start_pos": "1264", "end_pos": "1264" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "898", "end_pos": "898" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38972-1.1262.1262", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38972-1.195.195", "start_pos": 195, "end_pos": 195, "uniprot_canonical_ac": "P38972-1", "length": 1358, "uniprot_id": "PUR4_YEAST", "protein_name": "Phosphoribosylformylglycinamidine synthase", "refseq_ac": "NP_011575", "refseq_name": "phosphoribosylformylglycinamidine synthase", "gene_name": "ADE6", "gene_names_uniprotkb": "ADE6", "gene_names_refseq": "ADE6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38972", "url": "https://www.uniprot.org/uniprotkb/P38972" } ], "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": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" } ], "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": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972", "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": "PNTMSIFTHEEPKPLVHVPL", "down_seq": "PKDTKQSPKDILSKANTELG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293" }, { "database": "iPTMnet", "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr195" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "471", "end_pos": "471" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1262", "end_pos": "1262" }, { "start_pos": "1264", "end_pos": "1264" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "898", "end_pos": "898" } ] } ], "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": "P38972-1.26.26", "start_pos": 26, "end_pos": 26, "uniprot_canonical_ac": "P38972-1", "length": 1358, "uniprot_id": "PUR4_YEAST", "protein_name": "Phosphoribosylformylglycinamidine synthase", "refseq_ac": "NP_011575", "refseq_name": "phosphoribosylformylglycinamidine synthase", "gene_name": "ADE6", "gene_names_uniprotkb": "ADE6", "gene_names_refseq": "ADE6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38972", "url": "https://www.uniprot.org/uniprotkb/P38972" } ], "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": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972", "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": "LPGPKALSQFRVDNLIKDIN", "down_seq": "YTNSTSVINELRSCYIHYVN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293" }, { "database": "iPTMnet", "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser26" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "471", "end_pos": "471" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1262", "end_pos": "1262" }, { "start_pos": "1264", "end_pos": "1264" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "898", "end_pos": "898" } ] } ], "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": "P38972-1.333.333", "start_pos": 333, "end_pos": 333, "uniprot_canonical_ac": "P38972-1", "length": 1358, "uniprot_id": "PUR4_YEAST", "protein_name": "Phosphoribosylformylglycinamidine synthase", "refseq_ac": "NP_011575", "refseq_name": "phosphoribosylformylglycinamidine synthase", "gene_name": "ADE6", "gene_names_uniprotkb": "ADE6", "gene_names_refseq": "ADE6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38972", "url": "https://www.uniprot.org/uniprotkb/P38972" } ], "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": "P38972", "url": "https://www.uniprot.org/uniprotkb/P38972" }, { "database": "iPTMnet", "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" } ], "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": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" } ], "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": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293", "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": "STTKEWTSTKERIPLLIKVE", "down_seq": "HNHPTAVSPFPGAATGSGGE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr333" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "471", "end_pos": "471" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1262", "end_pos": "1262" }, { "start_pos": "1264", "end_pos": "1264" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "898", "end_pos": "898" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P38972-1.338.338", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38972-1.341.341", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38972-1.338.338", "start_pos": 338, "end_pos": 338, "uniprot_canonical_ac": "P38972-1", "length": 1358, "uniprot_id": "PUR4_YEAST", "protein_name": "Phosphoribosylformylglycinamidine synthase", "refseq_ac": "NP_011575", "refseq_name": "phosphoribosylformylglycinamidine synthase", "gene_name": "ADE6", "gene_names_uniprotkb": "ADE6", "gene_names_refseq": "ADE6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38972", "url": "https://www.uniprot.org/uniprotkb/P38972" } ], "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": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972", "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": "WTSTKERIPLLIKVETHNHP", "down_seq": "AVSPFPGAATGSGGEIRDEG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293" }, { "database": "iPTMnet", "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr338" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "471", "end_pos": "471" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1262", "end_pos": "1262" }, { "start_pos": "1264", "end_pos": "1264" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "898", "end_pos": "898" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38972-1.333.333", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38972-1.341.341", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38972-1.341.341", "start_pos": 341, "end_pos": 341, "uniprot_canonical_ac": "P38972-1", "length": 1358, "uniprot_id": "PUR4_YEAST", "protein_name": "Phosphoribosylformylglycinamidine synthase", "refseq_ac": "NP_011575", "refseq_name": "phosphoribosylformylglycinamidine synthase", "gene_name": "ADE6", "gene_names_uniprotkb": "ADE6", "gene_names_refseq": "ADE6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38972", "url": "https://www.uniprot.org/uniprotkb/P38972" } ], "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": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972", "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": "TKERIPLLIKVETHNHPTAV", "down_seq": "PFPGAATGSGGEIRDEGATG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293" }, { "database": "iPTMnet", "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser341" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "471", "end_pos": "471" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1262", "end_pos": "1262" }, { "start_pos": "1264", "end_pos": "1264" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "898", "end_pos": "898" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38972-1.333.333", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38972-1.338.338", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38972-1.596.596", "start_pos": 596, "end_pos": 596, "uniprot_canonical_ac": "P38972-1", "length": 1358, "uniprot_id": "PUR4_YEAST", "protein_name": "Phosphoribosylformylglycinamidine synthase", "refseq_ac": "NP_011575", "refseq_name": "phosphoribosylformylglycinamidine synthase", "gene_name": "ADE6", "gene_names_uniprotkb": "ADE6", "gene_names_refseq": "ADE6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38972", "url": "https://www.uniprot.org/uniprotkb/P38972" } ], "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": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972", "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": "GMSPMEIWCNESQERYVLGV", "down_seq": "PQDLSIFEEICKRERAPFAV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293" }, { "database": "iPTMnet", "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser596" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "471", "end_pos": "471" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1262", "end_pos": "1262" }, { "start_pos": "1264", "end_pos": "1264" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "898", "end_pos": "898" } ] } ], "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": "P38972-1.786.786", "start_pos": 786, "end_pos": 786, "uniprot_canonical_ac": "P38972-1", "length": 1358, "uniprot_id": "PUR4_YEAST", "protein_name": "Phosphoribosylformylglycinamidine synthase", "refseq_ac": "NP_011575", "refseq_name": "phosphoribosylformylglycinamidine synthase", "gene_name": "ADE6", "gene_names_uniprotkb": "ADE6", "gene_names_refseq": "ADE6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38972", "url": "https://www.uniprot.org/uniprotkb/P38972" } ], "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": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" } ], "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": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972", "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": "NIFAADVKSLNHIKLSANWM", "down_seq": "PASHQGEGSKLYEAVQALGL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293" }, { "database": "iPTMnet", "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser786" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "471", "end_pos": "471" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1262", "end_pos": "1262" }, { "start_pos": "1264", "end_pos": "1264" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "898", "end_pos": "898" } ] } ], "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": "P38972-1.856.856", "start_pos": 856, "end_pos": 856, "uniprot_canonical_ac": "P38972-1", "length": 1358, "uniprot_id": "PUR4_YEAST", "protein_name": "Phosphoribosylformylglycinamidine synthase", "refseq_ac": "NP_011575", "refseq_name": "phosphoribosylformylglycinamidine synthase", "gene_name": "ADE6", "gene_names_uniprotkb": "ADE6", "gene_names_refseq": "ADE6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38972", "url": "https://www.uniprot.org/uniprotkb/P38972" } ], "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": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972", "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": "APLSLNITAFAPVFNTSKTW", "down_seq": "PLLNRNTDDSVLVLVDLSAK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293" }, { "database": "iPTMnet", "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr856" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "471", "end_pos": "471" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1262", "end_pos": "1262" }, { "start_pos": "1264", "end_pos": "1264" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "898", "end_pos": "898" } ] } ], "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": "P38972-1.898.898", "start_pos": 898, "end_pos": 898, "uniprot_canonical_ac": "P38972-1", "length": 1358, "uniprot_id": "PUR4_YEAST", "protein_name": "Phosphoribosylformylglycinamidine synthase", "refseq_ac": "NP_011575", "refseq_name": "phosphoribosylformylglycinamidine synthase", "gene_name": "ADE6", "gene_names_uniprotkb": "ADE6", "gene_names_refseq": "ADE6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38972", "url": "https://www.uniprot.org/uniprotkb/P38972" } ], "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": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972", "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": "ETKSLGASALLQVYNQVGNK", "down_seq": "PTVYDNAILKGFLESLIQLH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003293", "url": "https://www.yeastgenome.org/locus/S000003293" }, { "database": "iPTMnet", "id": "P38972", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38972" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser898" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "471", "end_pos": "471" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1262", "end_pos": "1262" }, { "start_pos": "1264", "end_pos": "1264" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "856", "end_pos": "856" }, { "start_pos": "898", "end_pos": "898" } ] } ], "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": "P38986-1.176.176", "start_pos": 176, "end_pos": 176, "uniprot_canonical_ac": "P38986-1", "length": 381, "uniprot_id": "ASPG1_YEAST", "protein_name": "L-asparaginase 1", "refseq_ac": "NP_010607", "refseq_name": "asparaginase ASP1", "gene_name": "ASP1", "gene_names_uniprotkb": "ASP1; D9798.6", "gene_names_refseq": "ASP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38986", "url": "https://www.uniprot.org/uniprotkb/P38986" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The ASP1 gene of Saccharomyces cerevisiae, encoding the intracellular isozyme of L-asparaginase.", "journal": "Gene", "date": "1994-06-24", "authors": "Sinclair K, Warner J P, Bonthron D T", "evidence": [ { "database": "UniProtKB", "id": "P38986", "url": "https://www.uniprot.org/uniprotkb/P38986" } ], "reference": [ { "type": "PubMed", "id": "8026756", "url": "https://glygen.org/publication/PubMed/8026756" } ] } ], "crossref": [ { "id": "P38986", "url": "https://www.uniprot.org/uniprotkb/P38986", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "8026756", "url": "https://glygen.org/publication/PubMed/8026756", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "A", "start_aa": "A", "up_seq": "DAGDVPIVFVGSMRPSTSVS", "down_seq": "DGPMNLYQAICIASNPKSRG", "mutagenesis": [ { "sequence_org": "A", "sequence_mut": "V", "comment": "Almost no activity.", "evidence": [ { "database": "UniProtKB", "id": "P38986", "url": "https://www.uniprot.org/uniprotkb/P38986" }, { "database": "PubMed", "id": "8026756", "url": "https://glygen.org/publication/PubMed/8026756" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "176", "end_pos": "176" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "220", "end_pos": "220" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "73", "end_pos": "73" } ] } ], "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": "P38986-1.220.220", "start_pos": 220, "end_pos": 220, "uniprot_canonical_ac": "P38986-1", "length": 381, "uniprot_id": "ASPG1_YEAST", "protein_name": "L-asparaginase 1", "refseq_ac": "NP_010607", "refseq_name": "asparaginase ASP1", "gene_name": "ASP1", "gene_names_uniprotkb": "ASP1; D9798.6", "gene_names_refseq": "ASP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38986", "url": "https://www.uniprot.org/uniprotkb/P38986" } ], "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": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986" } ], "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": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002729", "url": "https://www.yeastgenome.org/locus/S000002729", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986", "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": "LVSLNDQISSGYYITKTNAN", "down_seq": "LDSFNVRQGYLGNFVNNEIH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002729", "url": "https://www.yeastgenome.org/locus/S000002729" }, { "database": "iPTMnet", "id": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser220" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "176", "end_pos": "176" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "220", "end_pos": "220" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "73", "end_pos": "73" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38986-1.223.223", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38986-1.223.223", "start_pos": 223, "end_pos": 223, "uniprot_canonical_ac": "P38986-1", "length": 381, "uniprot_id": "ASPG1_YEAST", "protein_name": "L-asparaginase 1", "refseq_ac": "NP_010607", "refseq_name": "asparaginase ASP1", "gene_name": "ASP1", "gene_names_uniprotkb": "ASP1; D9798.6", "gene_names_refseq": "ASP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38986", "url": "https://www.uniprot.org/uniprotkb/P38986" } ], "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": "P38986", "url": "https://www.uniprot.org/uniprotkb/P38986" }, { "database": "iPTMnet", "id": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986" } ], "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": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002729", "url": "https://www.yeastgenome.org/locus/S000002729", "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": "LNDQISSGYYITKTNANSLD", "down_seq": "FNVRQGYLGNFVNNEIHYYY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002729", "url": "https://www.yeastgenome.org/locus/S000002729" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser223" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "176", "end_pos": "176" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "220", "end_pos": "220" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "73", "end_pos": "73" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38986-1.220.220", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38986-1.323.323", "start_pos": 323, "end_pos": 323, "uniprot_canonical_ac": "P38986-1", "length": 381, "uniprot_id": "ASPG1_YEAST", "protein_name": "L-asparaginase 1", "refseq_ac": "NP_010607", "refseq_name": "asparaginase ASP1", "gene_name": "ASP1", "gene_names_uniprotkb": "ASP1; D9798.6", "gene_names_refseq": "ASP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38986", "url": "https://www.uniprot.org/uniprotkb/P38986" } ], "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": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986" } ], "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": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002729", "url": "https://www.yeastgenome.org/locus/S000002729", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986", "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": "PEEVNETCMKLSLPIVYSKR", "down_seq": "MDGMVPIANVPKKGSKEDNL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002729", "url": "https://www.yeastgenome.org/locus/S000002729" }, { "database": "iPTMnet", "id": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986" }, { "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": "176", "end_pos": "176" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "220", "end_pos": "220" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "73", "end_pos": "73" } ] } ], "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": "P38986-1.346.346", "start_pos": 346, "end_pos": 346, "uniprot_canonical_ac": "P38986-1", "length": 381, "uniprot_id": "ASPG1_YEAST", "protein_name": "L-asparaginase 1", "refseq_ac": "NP_010607", "refseq_name": "asparaginase ASP1", "gene_name": "ASP1", "gene_names_uniprotkb": "ASP1; D9798.6", "gene_names_refseq": "ASP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38986", "url": "https://www.uniprot.org/uniprotkb/P38986" } ], "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": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986" } ], "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": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002729", "url": "https://www.yeastgenome.org/locus/S000002729", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986", "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": "GMVPIANVPKKGSKEDNLIA", "down_seq": "GYLSPEKSRILLQLCLAGNY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002729", "url": "https://www.yeastgenome.org/locus/S000002729" }, { "database": "iPTMnet", "id": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986" }, { "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": "mutagenesis", "site_list": [ { "start_pos": "176", "end_pos": "176" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "220", "end_pos": "220" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "73", "end_pos": "73" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P38986-1.350.350", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38986-1.350.350", "start_pos": 350, "end_pos": 350, "uniprot_canonical_ac": "P38986-1", "length": 381, "uniprot_id": "ASPG1_YEAST", "protein_name": "L-asparaginase 1", "refseq_ac": "NP_010607", "refseq_name": "asparaginase ASP1", "gene_name": "ASP1", "gene_names_uniprotkb": "ASP1; D9798.6", "gene_names_refseq": "ASP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38986", "url": "https://www.uniprot.org/uniprotkb/P38986" } ], "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": "P38986", "url": "https://www.uniprot.org/uniprotkb/P38986" }, { "database": "iPTMnet", "id": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986" } ], "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": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986" } ], "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": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "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": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986" } ], "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": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986" } ], "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": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38986", "url": "https://www.uniprot.org/uniprotkb/P38986", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986", "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": "S000002729", "url": "https://www.yeastgenome.org/locus/S000002729", "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": "IANVPKKGSKEDNLIASGYL", "down_seq": "PEKSRILLQLCLAGNYTLEE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38986", "url": "https://www.uniprot.org/uniprotkb/P38986" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986" }, { "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": "S000002729", "url": "https://www.yeastgenome.org/locus/S000002729" }, { "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": "Ser350" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "176", "end_pos": "176" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "220", "end_pos": "220" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "73", "end_pos": "73" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38986-1.346.346", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38986-1.36.36", "start_pos": 36, "end_pos": 36, "uniprot_canonical_ac": "P38986-1", "length": 381, "uniprot_id": "ASPG1_YEAST", "protein_name": "L-asparaginase 1", "refseq_ac": "NP_010607", "refseq_name": "asparaginase ASP1", "gene_name": "ASP1", "gene_names_uniprotkb": "ASP1; D9798.6", "gene_names_refseq": "ASP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38986", "url": "https://www.uniprot.org/uniprotkb/P38986" } ], "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": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986" } ], "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": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002729", "url": "https://www.yeastgenome.org/locus/S000002729", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986", "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": "ENSQFVVQSNCPETIPEILK", "down_seq": "QNAAVNGSGIACQQRSLPRI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002729", "url": "https://www.yeastgenome.org/locus/S000002729" }, { "database": "iPTMnet", "id": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser36" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "176", "end_pos": "176" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "220", "end_pos": "220" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "73", "end_pos": "73" } ] } ], "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": "P38986-1.61.61", "start_pos": 61, "end_pos": 61, "uniprot_canonical_ac": "P38986-1", "length": 381, "uniprot_id": "ASPG1_YEAST", "protein_name": "L-asparaginase 1", "refseq_ac": "NP_010607", "refseq_name": "asparaginase ASP1", "gene_name": "ASP1", "gene_names_uniprotkb": "ASP1; D9798.6", "gene_names_refseq": "ASP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38986", "url": "https://www.uniprot.org/uniprotkb/P38986" } ], "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": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986", "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": "VNGSGIACQQRSLPRIKILG", "down_seq": "GGTIASKAIDSSQTAGYHVD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr61" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "176", "end_pos": "176" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "220", "end_pos": "220" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "73", "end_pos": "73" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "upstream", "id": "P38986-1.73.73", "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": "P38986-1.73.73", "start_pos": 73, "end_pos": 73, "uniprot_canonical_ac": "P38986-1", "length": 381, "uniprot_id": "ASPG1_YEAST", "protein_name": "L-asparaginase 1", "refseq_ac": "NP_010607", "refseq_name": "asparaginase ASP1", "gene_name": "ASP1", "gene_names_uniprotkb": "ASP1; D9798.6", "gene_names_refseq": "ASP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38986", "url": "https://www.uniprot.org/uniprotkb/P38986" } ], "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": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002729", "url": "https://www.yeastgenome.org/locus/S000002729", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986", "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": "LPRIKILGTGGTIASKAIDS", "down_seq": "QTAGYHVDLTIQDLLDAIPD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002729", "url": "https://www.yeastgenome.org/locus/S000002729" }, { "database": "iPTMnet", "id": "P38986", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38986" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser73" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "176", "end_pos": "176" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "220", "end_pos": "220" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "73", "end_pos": "73" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38986-1.61.61", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38999-1.101.101", "start_pos": 101, "end_pos": 101, "uniprot_canonical_ac": "P38999-1", "length": 446, "uniprot_id": "LYS9_YEAST", "protein_name": "Saccharopine dehydrogenase [NADP(+), L-glutamate-forming]", "refseq_ac": "NP_014448", "refseq_name": "saccharopine dehydrogenase (NADP+, L-glutamate-forming)", "gene_name": "LYS9", "gene_names_uniprotkb": "LYS9; LYS13; N3461", "gene_names_refseq": "LYS13; LYS9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38999", "url": "https://www.uniprot.org/uniprotkb/P38999" } ], "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": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005333", "url": "https://www.yeastgenome.org/locus/S000005333", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999", "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": "PNVVKSAIRTKTDVVTSSYI", "down_seq": "PALRELEPEIVKAGITVMNE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005333", "url": "https://www.yeastgenome.org/locus/S000005333" }, { "database": "iPTMnet", "id": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser101" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38999-1.92.92", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38999-1.98.98", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38999-1.99.99", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38999-1.196.196", "start_pos": 196, "end_pos": 196, "uniprot_canonical_ac": "P38999-1", "length": 446, "uniprot_id": "LYS9_YEAST", "protein_name": "Saccharopine dehydrogenase [NADP(+), L-glutamate-forming]", "refseq_ac": "NP_014448", "refseq_name": "saccharopine dehydrogenase (NADP+, L-glutamate-forming)", "gene_name": "LYS9", "gene_names_uniprotkb": "LYS9; LYS13; N3461", "gene_names_refseq": "LYS13; LYS9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38999", "url": "https://www.uniprot.org/uniprotkb/P38999" } ], "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": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999", "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": "RGVLLALRNSAKYWKDGKIE", "down_seq": "VSSEDLMATAKPYFIYPGYA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr196" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38999-1.198.198", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38999-1.199.199", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38999-1.205.205", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38999-1.198.198", "start_pos": 198, "end_pos": 198, "uniprot_canonical_ac": "P38999-1", "length": 446, "uniprot_id": "LYS9_YEAST", "protein_name": "Saccharopine dehydrogenase [NADP(+), L-glutamate-forming]", "refseq_ac": "NP_014448", "refseq_name": "saccharopine dehydrogenase (NADP+, L-glutamate-forming)", "gene_name": "LYS9", "gene_names_uniprotkb": "LYS9; LYS13; N3461", "gene_names_refseq": "LYS13; LYS9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38999", "url": "https://www.uniprot.org/uniprotkb/P38999" } ], "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": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999" } ], "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": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005333", "url": "https://www.yeastgenome.org/locus/S000005333", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999", "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": "VLLALRNSAKYWKDGKIETV", "down_seq": "SEDLMATAKPYFIYPGYAFV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005333", "url": "https://www.yeastgenome.org/locus/S000005333" }, { "database": "iPTMnet", "id": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser198" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38999-1.196.196", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38999-1.199.199", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38999-1.205.205", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38999-1.199.199", "start_pos": 199, "end_pos": 199, "uniprot_canonical_ac": "P38999-1", "length": 446, "uniprot_id": "LYS9_YEAST", "protein_name": "Saccharopine dehydrogenase [NADP(+), L-glutamate-forming]", "refseq_ac": "NP_014448", "refseq_name": "saccharopine dehydrogenase (NADP+, L-glutamate-forming)", "gene_name": "LYS9", "gene_names_uniprotkb": "LYS9; LYS13; N3461", "gene_names_refseq": "LYS13; LYS9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38999", "url": "https://www.uniprot.org/uniprotkb/P38999" } ], "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": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005333", "url": "https://www.yeastgenome.org/locus/S000005333", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999", "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": "LLALRNSAKYWKDGKIETVS", "down_seq": "EDLMATAKPYFIYPGYAFVC", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005333", "url": "https://www.yeastgenome.org/locus/S000005333" }, { "database": "iPTMnet", "id": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser199" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38999-1.196.196", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38999-1.198.198", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38999-1.205.205", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38999-1.205.205", "start_pos": 205, "end_pos": 205, "uniprot_canonical_ac": "P38999-1", "length": 446, "uniprot_id": "LYS9_YEAST", "protein_name": "Saccharopine dehydrogenase [NADP(+), L-glutamate-forming]", "refseq_ac": "NP_014448", "refseq_name": "saccharopine dehydrogenase (NADP+, L-glutamate-forming)", "gene_name": "LYS9", "gene_names_uniprotkb": "LYS9; LYS13; N3461", "gene_names_refseq": "LYS13; LYS9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38999", "url": "https://www.uniprot.org/uniprotkb/P38999" } ], "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": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005333", "url": "https://www.yeastgenome.org/locus/S000005333", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999", "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": "SAKYWKDGKIETVSSEDLMA", "down_seq": "AKPYFIYPGYAFVCYPNRDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005333", "url": "https://www.yeastgenome.org/locus/S000005333" }, { "database": "iPTMnet", "id": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr205" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38999-1.196.196", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38999-1.198.198", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38999-1.199.199", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38999-1.377.377", "start_pos": 377, "end_pos": 377, "uniprot_canonical_ac": "P38999-1", "length": 446, "uniprot_id": "LYS9_YEAST", "protein_name": "Saccharopine dehydrogenase [NADP(+), L-glutamate-forming]", "refseq_ac": "NP_014448", "refseq_name": "saccharopine dehydrogenase (NADP+, L-glutamate-forming)", "gene_name": "LYS9", "gene_names_uniprotkb": "LYS9; LYS13; N3461", "gene_names_refseq": "LYS13; LYS9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38999", "url": "https://www.uniprot.org/uniprotkb/P38999" } ], "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": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005333", "url": "https://www.yeastgenome.org/locus/S000005333", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999", "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": "VVLQHKFGIEWADGTTETRT", "down_seq": "TLVDYGKVGGYSSMAATVGY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005333", "url": "https://www.yeastgenome.org/locus/S000005333" }, { "database": "iPTMnet", "id": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser377" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "98", "end_pos": "98" }, { "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": "P38999-1.421.421", "start_pos": 421, "end_pos": 421, "uniprot_canonical_ac": "P38999-1", "length": 446, "uniprot_id": "LYS9_YEAST", "protein_name": "Saccharopine dehydrogenase [NADP(+), L-glutamate-forming]", "refseq_ac": "NP_014448", "refseq_name": "saccharopine dehydrogenase (NADP+, L-glutamate-forming)", "gene_name": "LYS9", "gene_names_uniprotkb": "LYS9; LYS13; N3461", "gene_names_refseq": "LYS13; LYS9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38999", "url": "https://www.uniprot.org/uniprotkb/P38999" } ], "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": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999" } ], "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": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005333", "url": "https://www.yeastgenome.org/locus/S000005333", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999", "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": "IATKFVLDGTIKGPGLLAPY", "down_seq": "PEINDPIMKELKDKYGIYLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005333", "url": "https://www.yeastgenome.org/locus/S000005333" }, { "database": "iPTMnet", "id": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999" }, { "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": "101", "end_pos": "101" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "98", "end_pos": "98" }, { "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38999-1.92.92", "start_pos": 92, "end_pos": 92, "uniprot_canonical_ac": "P38999-1", "length": 446, "uniprot_id": "LYS9_YEAST", "protein_name": "Saccharopine dehydrogenase [NADP(+), L-glutamate-forming]", "refseq_ac": "NP_014448", "refseq_name": "saccharopine dehydrogenase (NADP+, L-glutamate-forming)", "gene_name": "LYS9", "gene_names_uniprotkb": "LYS9; LYS13; N3461", "gene_names_refseq": "LYS13; LYS9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38999", "url": "https://www.uniprot.org/uniprotkb/P38999" } ], "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": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005333", "url": "https://www.yeastgenome.org/locus/S000005333", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999", "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": "ISLIPYTFHPNVVKSAIRTK", "down_seq": "DVVTSSYISPALRELEPEIV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005333", "url": "https://www.yeastgenome.org/locus/S000005333" }, { "database": "iPTMnet", "id": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr92" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P38999-1.98.98", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38999-1.99.99", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38999-1.101.101", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38999-1.98.98", "start_pos": 98, "end_pos": 98, "uniprot_canonical_ac": "P38999-1", "length": 446, "uniprot_id": "LYS9_YEAST", "protein_name": "Saccharopine dehydrogenase [NADP(+), L-glutamate-forming]", "refseq_ac": "NP_014448", "refseq_name": "saccharopine dehydrogenase (NADP+, L-glutamate-forming)", "gene_name": "LYS9", "gene_names_uniprotkb": "LYS9; LYS13; N3461", "gene_names_refseq": "LYS13; LYS9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38999", "url": "https://www.uniprot.org/uniprotkb/P38999" } ], "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": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005333", "url": "https://www.yeastgenome.org/locus/S000005333", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999", "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": "TFHPNVVKSAIRTKTDVVTS", "down_seq": "YISPALRELEPEIVKAGITV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005333", "url": "https://www.yeastgenome.org/locus/S000005333" }, { "database": "iPTMnet", "id": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser98" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38999-1.92.92", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38999-1.99.99", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38999-1.101.101", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38999-1.99.99", "start_pos": 99, "end_pos": 99, "uniprot_canonical_ac": "P38999-1", "length": 446, "uniprot_id": "LYS9_YEAST", "protein_name": "Saccharopine dehydrogenase [NADP(+), L-glutamate-forming]", "refseq_ac": "NP_014448", "refseq_name": "saccharopine dehydrogenase (NADP+, L-glutamate-forming)", "gene_name": "LYS9", "gene_names_uniprotkb": "LYS9; LYS13; N3461", "gene_names_refseq": "LYS13; LYS9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38999", "url": "https://www.uniprot.org/uniprotkb/P38999" } ], "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": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005333", "url": "https://www.yeastgenome.org/locus/S000005333", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999", "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": "FHPNVVKSAIRTKTDVVTSS", "down_seq": "ISPALRELEPEIVKAGITVM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005333", "url": "https://www.yeastgenome.org/locus/S000005333" }, { "database": "iPTMnet", "id": "P38999", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38999" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr99" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "92", "end_pos": "92" }, { "start_pos": "98", "end_pos": "98" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38999-1.92.92", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38999-1.98.98", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38999-1.101.101", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P39005-1.231.231", "start_pos": 231, "end_pos": 231, "uniprot_canonical_ac": "P39005-1", "length": 276, "uniprot_id": "KRE9_YEAST", "protein_name": "Cell wall synthesis protein KRE9", "refseq_ac": "NP_012361", "refseq_name": "Kre9p", "gene_name": "KRE9", "gene_names_uniprotkb": "KRE9; J0504", "gene_names_refseq": "KRE9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39005", "url": "https://www.uniprot.org/uniprotkb/P39005" } ], "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": "TSAVTYYSTFGSLPEQATTI", "down_seq": "PGWSYTISSGVNYATPASMP", "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": "Thr231", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "231", "end_pos": "231" }, { "start_pos": "246", "end_pos": "246" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "upstream", "id": "P39005-1.246.246", "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": "P39005-1.246.246", "start_pos": 246, "end_pos": 246, "uniprot_canonical_ac": "P39005-1", "length": 276, "uniprot_id": "KRE9_YEAST", "protein_name": "Cell wall synthesis protein KRE9", "refseq_ac": "NP_012361", "refseq_name": "Kre9p", "gene_name": "KRE9", "gene_names_uniprotkb": "KRE9; J0504", "gene_names_refseq": "KRE9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39005", "url": "https://www.uniprot.org/uniprotkb/P39005" } ], "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": "QATTITPGWSYTISSGVNYA", "down_seq": "PASMPSDNGGWYKPSKRLSL", "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": "Thr246", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "231", "end_pos": "231" }, { "start_pos": "246", "end_pos": "246" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P39005-1.231.231", "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": "P39076-1.237.237", "start_pos": 237, "end_pos": 237, "uniprot_canonical_ac": "P39076-1", "length": 527, "uniprot_id": "TCPB_YEAST", "protein_name": "T-complex protein 1 subunit beta", "refseq_ac": "NP_012124", "refseq_name": "chaperonin-containing T-complex subunit CCT2", "gene_name": "CCT2", "gene_names_uniprotkb": "CCT2; BIN3; TCP2", "gene_names_refseq": "BIN3; CCT2; TCP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39076", "url": "https://www.uniprot.org/uniprotkb/P39076" } ], "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": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076", "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": "KFGNNQPKRIENAKILIANT", "down_seq": "LDTDKVKIFGTKFKVDSTAK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404" }, { "database": "iPTMnet", "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr237" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "upstream", "id": "P39076-1.254.254", "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": "P39076-1.254.254", "start_pos": 254, "end_pos": 254, "uniprot_canonical_ac": "P39076-1", "length": 527, "uniprot_id": "TCPB_YEAST", "protein_name": "T-complex protein 1 subunit beta", "refseq_ac": "NP_012124", "refseq_name": "chaperonin-containing T-complex subunit CCT2", "gene_name": "CCT2", "gene_names_uniprotkb": "CCT2; BIN3; TCP2", "gene_names_refseq": "BIN3; CCT2; TCP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39076", "url": "https://www.uniprot.org/uniprotkb/P39076" } ], "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": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" } ], "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": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404", "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": "ANTTLDTDKVKIFGTKFKVD", "down_seq": "TAKLAQLEKAEREKMKNKIA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser254" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P39076-1.237.237", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P39076-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P39076-1", "length": 527, "uniprot_id": "TCPB_YEAST", "protein_name": "T-complex protein 1 subunit beta", "refseq_ac": "NP_012124", "refseq_name": "chaperonin-containing T-complex subunit CCT2", "gene_name": "CCT2", "gene_names_uniprotkb": "CCT2; BIN3; TCP2", "gene_names_refseq": "BIN3; CCT2; TCP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39076", "url": "https://www.uniprot.org/uniprotkb/P39076" } ], "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": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076", "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": "VQIFGDQVTEERAENARLSA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404" }, { "database": "iPTMnet", "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "53", "end_pos": "53" }, { "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": "P39076-1.321.321", "start_pos": 321, "end_pos": 321, "uniprot_canonical_ac": "P39076-1", "length": 527, "uniprot_id": "TCPB_YEAST", "protein_name": "T-complex protein 1 subunit beta", "refseq_ac": "NP_012124", "refseq_name": "chaperonin-containing T-complex subunit CCT2", "gene_name": "CCT2", "gene_names_uniprotkb": "CCT2; BIN3; TCP2", "gene_names_refseq": "BIN3; CCT2; TCP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39076", "url": "https://www.uniprot.org/uniprotkb/P39076" } ], "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": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076", "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": "LGINSIEHADFEGVERLALV", "down_seq": "GGEVVSTFDEPSKCKLGECD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404" }, { "database": "iPTMnet", "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr321" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P39076-1.327.327", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P39076-1.328.328", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P39076-1.333.333", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P39076-1.327.327", "start_pos": 327, "end_pos": 327, "uniprot_canonical_ac": "P39076-1", "length": 527, "uniprot_id": "TCPB_YEAST", "protein_name": "T-complex protein 1 subunit beta", "refseq_ac": "NP_012124", "refseq_name": "chaperonin-containing T-complex subunit CCT2", "gene_name": "CCT2", "gene_names_uniprotkb": "CCT2; BIN3; TCP2", "gene_names_refseq": "BIN3; CCT2; TCP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39076", "url": "https://www.uniprot.org/uniprotkb/P39076" } ], "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": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076", "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": "EHADFEGVERLALVTGGEVV", "down_seq": "TFDEPSKCKLGECDVIEEIM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404" }, { "database": "iPTMnet", "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser327" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P39076-1.321.321", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P39076-1.328.328", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P39076-1.333.333", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P39076-1.328.328", "start_pos": 328, "end_pos": 328, "uniprot_canonical_ac": "P39076-1", "length": 527, "uniprot_id": "TCPB_YEAST", "protein_name": "T-complex protein 1 subunit beta", "refseq_ac": "NP_012124", "refseq_name": "chaperonin-containing T-complex subunit CCT2", "gene_name": "CCT2", "gene_names_uniprotkb": "CCT2; BIN3; TCP2", "gene_names_refseq": "BIN3; CCT2; TCP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39076", "url": "https://www.uniprot.org/uniprotkb/P39076" } ], "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": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076", "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": "HADFEGVERLALVTGGEVVS", "down_seq": "FDEPSKCKLGECDVIEEIML", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404" }, { "database": "iPTMnet", "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr328" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P39076-1.321.321", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P39076-1.327.327", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P39076-1.333.333", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P39076-1.333.333", "start_pos": 333, "end_pos": 333, "uniprot_canonical_ac": "P39076-1", "length": 527, "uniprot_id": "TCPB_YEAST", "protein_name": "T-complex protein 1 subunit beta", "refseq_ac": "NP_012124", "refseq_name": "chaperonin-containing T-complex subunit CCT2", "gene_name": "CCT2", "gene_names_uniprotkb": "CCT2; BIN3; TCP2", "gene_names_refseq": "BIN3; CCT2; TCP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39076", "url": "https://www.uniprot.org/uniprotkb/P39076" } ], "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": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076", "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": "GVERLALVTGGEVVSTFDEP", "down_seq": "KCKLGECDVIEEIMLGEQPF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404" }, { "database": "iPTMnet", "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser333" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P39076-1.321.321", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P39076-1.327.327", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P39076-1.328.328", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P39076-1.383.383", "start_pos": 383, "end_pos": 383, "uniprot_canonical_ac": "P39076-1", "length": 527, "uniprot_id": "TCPB_YEAST", "protein_name": "T-complex protein 1 subunit beta", "refseq_ac": "NP_012124", "refseq_name": "chaperonin-containing T-complex subunit CCT2", "gene_name": "CCT2", "gene_names_uniprotkb": "CCT2; BIN3; TCP2", "gene_names_refseq": "BIN3; CCT2; TCP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39076", "url": "https://www.uniprot.org/uniprotkb/P39076" } ], "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": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076", "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": "EACTIVLRGATDQTLDEAER", "down_seq": "LHDALSVLSQTTKETRTVLG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404" }, { "database": "iPTMnet", "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser383" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "53", "end_pos": "53" }, { "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": "P39076-1.457.457", "start_pos": 457, "end_pos": 457, "uniprot_canonical_ac": "P39076-1", "length": 527, "uniprot_id": "TCPB_YEAST", "protein_name": "T-complex protein 1 subunit beta", "refseq_ac": "NP_012124", "refseq_name": "chaperonin-containing T-complex subunit CCT2", "gene_name": "CCT2", "gene_names_uniprotkb": "CCT2; BIN3; TCP2", "gene_names_refseq": "BIN3; CCT2; TCP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39076", "url": "https://www.uniprot.org/uniprotkb/P39076" } ], "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": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076", "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": "LRQLPTILADNAGFDSSELV", "down_seq": "KLRSSIYNGISTSGLDLNNG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404" }, { "database": "iPTMnet", "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser457" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "53", "end_pos": "53" }, { "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": "P39076-1.48.48", "start_pos": 48, "end_pos": 48, "uniprot_canonical_ac": "P39076-1", "length": 527, "uniprot_id": "TCPB_YEAST", "protein_name": "T-complex protein 1 subunit beta", "refseq_ac": "NP_012124", "refseq_name": "chaperonin-containing T-complex subunit CCT2", "gene_name": "CCT2", "gene_names_uniprotkb": "CCT2; BIN3; TCP2", "gene_names_refseq": "BIN3; CCT2; TCP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39076", "url": "https://www.uniprot.org/uniprotkb/P39076" } ], "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": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076", "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": "AVGDLVKSTLGPKGMDKLLQ", "down_seq": "ASSNTCMVTNDGATILKSIP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404" }, { "database": "iPTMnet", "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser48" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P39076-1.50.50", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P39076-1.51.51", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P39076-1.53.53", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P39076-1.66.66", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P39076-1.50.50", "start_pos": 50, "end_pos": 50, "uniprot_canonical_ac": "P39076-1", "length": 527, "uniprot_id": "TCPB_YEAST", "protein_name": "T-complex protein 1 subunit beta", "refseq_ac": "NP_012124", "refseq_name": "chaperonin-containing T-complex subunit CCT2", "gene_name": "CCT2", "gene_names_uniprotkb": "CCT2; BIN3; TCP2", "gene_names_refseq": "BIN3; CCT2; TCP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39076", "url": "https://www.uniprot.org/uniprotkb/P39076" } ], "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": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076", "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": "GDLVKSTLGPKGMDKLLQSA", "down_seq": "SNTCMVTNDGATILKSIPLD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404" }, { "database": "iPTMnet", "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser50" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P39076-1.48.48", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P39076-1.51.51", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P39076-1.53.53", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P39076-1.66.66", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P39076-1.51.51", "start_pos": 51, "end_pos": 51, "uniprot_canonical_ac": "P39076-1", "length": 527, "uniprot_id": "TCPB_YEAST", "protein_name": "T-complex protein 1 subunit beta", "refseq_ac": "NP_012124", "refseq_name": "chaperonin-containing T-complex subunit CCT2", "gene_name": "CCT2", "gene_names_uniprotkb": "CCT2; BIN3; TCP2", "gene_names_refseq": "BIN3; CCT2; TCP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39076", "url": "https://www.uniprot.org/uniprotkb/P39076" } ], "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": "P39076", "url": "https://www.uniprot.org/uniprotkb/P39076" }, { "database": "iPTMnet", "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" } ], "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": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" } ], "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": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404", "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": "DLVKSTLGPKGMDKLLQSAS", "down_seq": "NTCMVTNDGATILKSIPLDN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser51" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P39076-1.48.48", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P39076-1.50.50", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P39076-1.53.53", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P39076-1.66.66", "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": "P39076-1.53.53", "start_pos": 53, "end_pos": 53, "uniprot_canonical_ac": "P39076-1", "length": 527, "uniprot_id": "TCPB_YEAST", "protein_name": "T-complex protein 1 subunit beta", "refseq_ac": "NP_012124", "refseq_name": "chaperonin-containing T-complex subunit CCT2", "gene_name": "CCT2", "gene_names_uniprotkb": "CCT2; BIN3; TCP2", "gene_names_refseq": "BIN3; CCT2; TCP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39076", "url": "https://www.uniprot.org/uniprotkb/P39076" } ], "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": "P39076", "url": "https://www.uniprot.org/uniprotkb/P39076" }, { "database": "iPTMnet", "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076", "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": "VKSTLGPKGMDKLLQSASSN", "down_seq": "CMVTNDGATILKSIPLDNPA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404" }, { "database": "iPTMnet", "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Thr53" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P39076-1.48.48", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P39076-1.50.50", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P39076-1.51.51", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P39076-1.66.66", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P39076-1.66.66", "start_pos": 66, "end_pos": 66, "uniprot_canonical_ac": "P39076-1", "length": 527, "uniprot_id": "TCPB_YEAST", "protein_name": "T-complex protein 1 subunit beta", "refseq_ac": "NP_012124", "refseq_name": "chaperonin-containing T-complex subunit CCT2", "gene_name": "CCT2", "gene_names_uniprotkb": "CCT2; BIN3; TCP2", "gene_names_refseq": "BIN3; CCT2; TCP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39076", "url": "https://www.uniprot.org/uniprotkb/P39076" } ], "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": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076", "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": "LQSASSNTCMVTNDGATILK", "down_seq": "IPLDNPAAKVLVNISKVQDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001404", "url": "https://www.yeastgenome.org/locus/S000001404" }, { "database": "iPTMnet", "id": "P39076", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39076" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser66" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "237", "end_pos": "237" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "457", "end_pos": "457" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P39076-1.48.48", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P39076-1.50.50", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P39076-1.51.51", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P39076-1.53.53", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P39077-1.130.130", "start_pos": 130, "end_pos": 130, "uniprot_canonical_ac": "P39077-1", "length": 534, "uniprot_id": "TCPG_YEAST", "protein_name": "T-complex protein 1 subunit gamma", "refseq_ac": "NP_012520", "refseq_name": "chaperonin-containing T-complex subunit CCT3", "gene_name": "CCT3", "gene_names_uniprotkb": "CCT3; BIN2; J1336; TCP3", "gene_names_refseq": "BIN2; CCT3; TCP3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39077", "url": "https://www.uniprot.org/uniprotkb/P39077" } ], "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": "P39077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39077" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P39077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39077", "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": "YLIEKNIHPVIIIQALKKAL", "down_seq": "DALEVIKQVSKPVDVENDAA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P39077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39077" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr130" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "130", "end_pos": "130" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "77", "end_pos": "77" } ] } ], "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": "P39077-1.23.23", "start_pos": 23, "end_pos": 23, "uniprot_canonical_ac": "P39077-1", "length": 534, "uniprot_id": "TCPG_YEAST", "protein_name": "T-complex protein 1 subunit gamma", "refseq_ac": "NP_012520", "refseq_name": "chaperonin-containing T-complex subunit CCT3", "gene_name": "CCT3", "gene_names_uniprotkb": "CCT3; BIN2; J1336; TCP3", "gene_names_refseq": "BIN2; CCT3; TCP3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39077", "url": "https://www.uniprot.org/uniprotkb/P39077" } ], "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": "P39077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39077" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003551", "url": "https://www.yeastgenome.org/locus/S000003551", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P39077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39077", "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": "APVVFMNASQERTTGRQAQI", "down_seq": "NITAAKAVADVIRTCLGPKA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003551", "url": "https://www.yeastgenome.org/locus/S000003551" }, { "database": "iPTMnet", "id": "P39077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39077" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser23" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "130", "end_pos": "130" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "77", "end_pos": "77" } ] } ], "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": "P39077-1.257.257", "start_pos": 257, "end_pos": 257, "uniprot_canonical_ac": "P39077-1", "length": 534, "uniprot_id": "TCPG_YEAST", "protein_name": "T-complex protein 1 subunit gamma", "refseq_ac": "NP_012520", "refseq_name": "chaperonin-containing T-complex subunit CCT3", "gene_name": "CCT3", "gene_names_uniprotkb": "CCT3; BIN2; J1336; TCP3", "gene_names_refseq": "BIN2; CCT3; TCP3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39077", "url": "https://www.uniprot.org/uniprotkb/P39077" } ], "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": "P39077", "url": "https://www.uniprot.org/uniprotkb/P39077" }, { "database": "iPTMnet", "id": "P39077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39077" } ], "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": "P39077", "url": "https://www.uniprot.org/uniprotkb/P39077" }, { "database": "iPTMnet", "id": "P39077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39077" } ], "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": "P39077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39077" } ], "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": "P39077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39077" } ], "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": "P39077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39077" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P39077", "url": "https://www.uniprot.org/uniprotkb/P39077", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P39077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39077", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003551", "url": "https://www.yeastgenome.org/locus/S000003551", "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": "HIENPRVVLLDCPLEYKKGE", "down_seq": "QTNIEIEKEEDWNRILQIEE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P39077", "url": "https://www.uniprot.org/uniprotkb/P39077" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P39077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39077" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "SGD", "id": "S000003551", "url": "https://www.yeastgenome.org/locus/S000003551" }, { "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": "Ser257" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "130", "end_pos": "130" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "77", "end_pos": "77" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P39077-1.259.259", "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": "P39077-1.259.259", "start_pos": 259, "end_pos": 259, "uniprot_canonical_ac": "P39077-1", "length": 534, "uniprot_id": "TCPG_YEAST", "protein_name": "T-complex protein 1 subunit gamma", "refseq_ac": "NP_012520", "refseq_name": "chaperonin-containing T-complex subunit CCT3", "gene_name": "CCT3", "gene_names_uniprotkb": "CCT3; BIN2; J1336; TCP3", "gene_names_refseq": "BIN2; CCT3; TCP3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39077", "url": "https://www.uniprot.org/uniprotkb/P39077" } ], "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": "P39077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39077" } ], "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": "P39077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39077" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003551", "url": "https://www.yeastgenome.org/locus/S000003551", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P39077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39077", "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": "ENPRVVLLDCPLEYKKGESQ", "down_seq": "NIEIEKEEDWNRILQIEEEQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003551", "url": "https://www.yeastgenome.org/locus/S000003551" }, { "database": "iPTMnet", "id": "P39077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39077" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr259" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "130", "end_pos": "130" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "77", "end_pos": "77" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P39077-1.257.257", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P39077-1.528.528", "start_pos": 528, "end_pos": 528, "uniprot_canonical_ac": "P39077-1", "length": 534, "uniprot_id": "TCPG_YEAST", "protein_name": "T-complex protein 1 subunit gamma", "refseq_ac": "NP_012520", "refseq_name": "chaperonin-containing T-complex subunit CCT3", "gene_name": "CCT3", "gene_names_uniprotkb": "CCT3; BIN2; J1336; TCP3", "gene_names_refseq": "BIN2; CCT3; TCP3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39077", "url": "https://www.uniprot.org/uniprotkb/P39077" } ], "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": "P39077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39077" } ], "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": "P39077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39077" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003551", "url": "https://www.yeastgenome.org/locus/S000003551", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P39077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39077", "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": "QSVKTAIESACLLLRVDDIV", "down_seq": "GVRKQE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003551", "url": "https://www.yeastgenome.org/locus/S000003551" }, { "database": "iPTMnet", "id": "P39077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39077" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser528" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "130", "end_pos": "130" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "77", "end_pos": "77" } ] } ], "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": "P39077-1.77.77", "start_pos": 77, "end_pos": 77, "uniprot_canonical_ac": "P39077-1", "length": 534, "uniprot_id": "TCPG_YEAST", "protein_name": "T-complex protein 1 subunit gamma", "refseq_ac": "NP_012520", "refseq_name": "chaperonin-containing T-complex subunit CCT3", "gene_name": "CCT3", "gene_names_uniprotkb": "CCT3; BIN2; J1336; TCP3", "gene_names_refseq": "BIN2; CCT3; TCP3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39077", "url": "https://www.uniprot.org/uniprotkb/P39077" } ], "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": "P39077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39077" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003551", "url": "https://www.yeastgenome.org/locus/S000003551", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P39077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39077", "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": "LTNDGHAILREIDVAHPAAK", "down_seq": "MLELSRTQDEEVGDGTTTVI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003551", "url": "https://www.yeastgenome.org/locus/S000003551" }, { "database": "iPTMnet", "id": "P39077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39077" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser77" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "130", "end_pos": "130" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "77", "end_pos": "77" } ] } ], "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": "P39078-1.30.30", "start_pos": 30, "end_pos": 30, "uniprot_canonical_ac": "P39078-1", "length": 528, "uniprot_id": "TCPD_YEAST", "protein_name": "T-complex protein 1 subunit delta", "refseq_ac": "NP_010138", "refseq_name": "chaperonin-containing T-complex subunit CCT4", "gene_name": "CCT4", "gene_names_uniprotkb": "CCT4; ANC2; TCP4", "gene_names_refseq": "ANC2; CCT4; TCP4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39078", "url": "https://www.uniprot.org/uniprotkb/P39078" } ], "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": "P39078", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P39078" }, { "database": "O-GlcNAc Atlas", "id": "P39078", "url": "https://oglcnac.org/atlas/detail/P39078" } ], "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": "P39078", "url": "https://oglcnac.org/atlas/detail/P39078", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TFKNKEKPQEVRKANIIAAR", "down_seq": "VADAIRTSLGPKGMDKMIKT", "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": "Ser30", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P39078", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P39078" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "30", "end_pos": "30" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "58", "end_pos": "58" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "527", "end_pos": "527" } ] } ], "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": "P39078-1.527.527", "start_pos": 527, "end_pos": 527, "uniprot_canonical_ac": "P39078-1", "length": 528, "uniprot_id": "TCPD_YEAST", "protein_name": "T-complex protein 1 subunit delta", "refseq_ac": "NP_010138", "refseq_name": "chaperonin-containing T-complex subunit CCT4", "gene_name": "CCT4", "gene_names_uniprotkb": "CCT4; ANC2; TCP4", "gene_names_refseq": "ANC2; CCT4; TCP4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39078", "url": "https://www.uniprot.org/uniprotkb/P39078" } ], "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": "P39078", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P39078" }, { "database": "O-GlcNAc Atlas", "id": "P39078", "url": "https://oglcnac.org/atlas/detail/P39078" } ], "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": "P39078", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39078" } ], "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": "P39078", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39078" } ], "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": "P39078", "url": "https://oglcnac.org/atlas/detail/P39078", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000002302", "url": "https://www.yeastgenome.org/locus/S000002302", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P39078", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39078", "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": "AITLASECVKSILRIDDIAF", "down_seq": "", "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": "Ser527", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P39078", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P39078" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002302", "url": "https://www.yeastgenome.org/locus/S000002302" }, { "database": "iPTMnet", "id": "P39078", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39078" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser527" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "30", "end_pos": "30" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "58", "end_pos": "58" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "527", "end_pos": "527" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "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": "P39078-1.58.58", "start_pos": 58, "end_pos": 58, "uniprot_canonical_ac": "P39078-1", "length": 528, "uniprot_id": "TCPD_YEAST", "protein_name": "T-complex protein 1 subunit delta", "refseq_ac": "NP_010138", "refseq_name": "chaperonin-containing T-complex subunit CCT4", "gene_name": "CCT4", "gene_names_uniprotkb": "CCT4; ANC2; TCP4", "gene_names_refseq": "ANC2; CCT4; TCP4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39078", "url": "https://www.uniprot.org/uniprotkb/P39078" } ], "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": "P39078", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P39078" }, { "database": "O-GlcNAc Atlas", "id": "P39078", "url": "https://oglcnac.org/atlas/detail/P39078" } ], "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": "P39078", "url": "https://oglcnac.org/atlas/detail/P39078", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SLGPKGMDKMIKTSRGEIII", "down_seq": "NDGHTILKQMAILHPVARML", "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": "Ser58", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P39078", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P39078" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "30", "end_pos": "30" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "58", "end_pos": "58" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "527", "end_pos": "527" } ] } ], "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": "P39078-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "P39078-1", "length": 528, "uniprot_id": "TCPD_YEAST", "protein_name": "T-complex protein 1 subunit delta", "refseq_ac": "NP_010138", "refseq_name": "chaperonin-containing T-complex subunit CCT4", "gene_name": "CCT4", "gene_names_uniprotkb": "CCT4; ANC2; TCP4", "gene_names_refseq": "ANC2; CCT4; TCP4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39078", "url": "https://www.uniprot.org/uniprotkb/P39078" } ], "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": "P39078", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P39078" }, { "database": "O-GlcNAc Atlas", "id": "P39078", "url": "https://oglcnac.org/atlas/detail/P39078" } ], "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": "P39078", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P39078", "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": "P39078", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P39078" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "30", "end_pos": "30" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "58", "end_pos": "58" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "527", "end_pos": "527" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P39078-1.2.2", "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": "P39078-1.164.164", "start_pos": 164, "end_pos": 164, "uniprot_canonical_ac": "P39078-1", "length": 528, "uniprot_id": "TCPD_YEAST", "protein_name": "T-complex protein 1 subunit delta", "refseq_ac": "NP_010138", "refseq_name": "chaperonin-containing T-complex subunit CCT4", "gene_name": "CCT4", "gene_names_uniprotkb": "CCT4; ANC2; TCP4", "gene_names_refseq": "ANC2; CCT4; TCP4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39078", "url": "https://www.uniprot.org/uniprotkb/P39078" } ], "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": "P39078", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39078" } ], "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": "P39078", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39078" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P39078", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39078", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002302", "url": "https://www.yeastgenome.org/locus/S000002302", "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": "LSDREQLVRAASTSLSSKIV", "down_seq": "QYSSFLAPLAVDSVLKISDE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P39078", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39078" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000002302", "url": "https://www.yeastgenome.org/locus/S000002302" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser164" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "30", "end_pos": "30" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "58", "end_pos": "58" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "527", "end_pos": "527" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P39078-1.168.168", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P39078-1.168.168", "start_pos": 168, "end_pos": 168, "uniprot_canonical_ac": "P39078-1", "length": 528, "uniprot_id": "TCPD_YEAST", "protein_name": "T-complex protein 1 subunit delta", "refseq_ac": "NP_010138", "refseq_name": "chaperonin-containing T-complex subunit CCT4", "gene_name": "CCT4", "gene_names_uniprotkb": "CCT4; ANC2; TCP4", "gene_names_refseq": "ANC2; CCT4; TCP4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39078", "url": "https://www.uniprot.org/uniprotkb/P39078" } ], "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": "P39078", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39078" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002302", "url": "https://www.yeastgenome.org/locus/S000002302", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P39078", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39078", "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": "EQLVRAASTSLSSKIVSQYS", "down_seq": "FLAPLAVDSVLKISDENSKN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002302", "url": "https://www.yeastgenome.org/locus/S000002302" }, { "database": "iPTMnet", "id": "P39078", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39078" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser168" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "30", "end_pos": "30" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "58", "end_pos": "58" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "527", "end_pos": "527" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P39078-1.164.164", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P39078-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P39078-1", "length": 528, "uniprot_id": "TCPD_YEAST", "protein_name": "T-complex protein 1 subunit delta", "refseq_ac": "NP_010138", "refseq_name": "chaperonin-containing T-complex subunit CCT4", "gene_name": "CCT4", "gene_names_uniprotkb": "CCT4; ANC2; TCP4", "gene_names_refseq": "ANC2; CCT4; TCP4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39078", "url": "https://www.uniprot.org/uniprotkb/P39078" } ], "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": "P39078", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39078" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002302", "url": "https://www.yeastgenome.org/locus/S000002302", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P39078", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39078", "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": "AKVPSNATFKNKEKPQEVRK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002302", "url": "https://www.yeastgenome.org/locus/S000002302" }, { "database": "iPTMnet", "id": "P39078", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39078" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "30", "end_pos": "30" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "58", "end_pos": "58" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "527", "end_pos": "527" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P39078-1.0.0", "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": "P39078-1.393.393", "start_pos": 393, "end_pos": 393, "uniprot_canonical_ac": "P39078-1", "length": 528, "uniprot_id": "TCPD_YEAST", "protein_name": "T-complex protein 1 subunit delta", "refseq_ac": "NP_010138", "refseq_name": "chaperonin-containing T-complex subunit CCT4", "gene_name": "CCT4", "gene_names_uniprotkb": "CCT4; ANC2; TCP4", "gene_names_refseq": "ANC2; CCT4; TCP4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39078", "url": "https://www.uniprot.org/uniprotkb/P39078" } ], "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": "P39078", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39078" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002302", "url": "https://www.yeastgenome.org/locus/S000002302", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P39078", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39078", "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": "PTVSVVIRGANNMIIDETER", "down_seq": "LHDALCVIRCLVKERGLIAG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002302", "url": "https://www.yeastgenome.org/locus/S000002302" }, { "database": "iPTMnet", "id": "P39078", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39078" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser393" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "30", "end_pos": "30" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "58", "end_pos": "58" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "527", "end_pos": "527" } ] } ], "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": "P39078-1.422.422", "start_pos": 422, "end_pos": 422, "uniprot_canonical_ac": "P39078-1", "length": 528, "uniprot_id": "TCPD_YEAST", "protein_name": "T-complex protein 1 subunit delta", "refseq_ac": "NP_010138", "refseq_name": "chaperonin-containing T-complex subunit CCT4", "gene_name": "CCT4", "gene_names_uniprotkb": "CCT4; ANC2; TCP4", "gene_names_refseq": "ANC2; CCT4; TCP4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39078", "url": "https://www.uniprot.org/uniprotkb/P39078" } ], "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": "P39078", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39078" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] } ], "crossref": [ { "id": "S000002302", "url": "https://www.yeastgenome.org/locus/S000002302", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P39078", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39078", "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": "RCLVKERGLIAGGGAPEIEI", "down_seq": "RRLSKEARSMEGVQAFIWQE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002302", "url": "https://www.yeastgenome.org/locus/S000002302" }, { "database": "iPTMnet", "id": "P39078", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39078" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ], "site_lbl": "Ser422" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "30", "end_pos": "30" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "58", "end_pos": "58" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "527", "end_pos": "527" } ] } ], "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": "P39079-1.245.245", "start_pos": 245, "end_pos": 245, "uniprot_canonical_ac": "P39079-1", "length": 546, "uniprot_id": "TCPZ_YEAST", "protein_name": "T-complex protein 1 subunit zeta", "refseq_ac": "NP_010474", "refseq_name": "chaperonin-containing T-complex subunit CCT6", "gene_name": "CCT6", "gene_names_uniprotkb": "CCT6; TCP20; TCP6; YD9395.21", "gene_names_refseq": "CCT6; HTR3; TCP20; TCP6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39079", "url": "https://www.uniprot.org/uniprotkb/P39079" } ], "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": "P39079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39079" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002596", "url": "https://www.yeastgenome.org/locus/S000002596", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P39079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39079", "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": "PTRVKNAYVLILNVSLEYEK", "down_seq": "EVNSGFFYSSADQRDKLAAS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002596", "url": "https://www.yeastgenome.org/locus/S000002596" }, { "database": "iPTMnet", "id": "P39079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39079" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr245" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "245", "end_pos": "245" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "544", "end_pos": "544" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P39079-1.249.249", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P39079-1.265.265", "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": "P39079-1.249.249", "start_pos": 249, "end_pos": 249, "uniprot_canonical_ac": "P39079-1", "length": 546, "uniprot_id": "TCPZ_YEAST", "protein_name": "T-complex protein 1 subunit zeta", "refseq_ac": "NP_010474", "refseq_name": "chaperonin-containing T-complex subunit CCT6", "gene_name": "CCT6", "gene_names_uniprotkb": "CCT6; TCP20; TCP6; YD9395.21", "gene_names_refseq": "CCT6; HTR3; TCP20; TCP6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39079", "url": "https://www.uniprot.org/uniprotkb/P39079" } ], "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": "P39079", "url": "https://www.uniprot.org/uniprotkb/P39079" }, { "database": "iPTMnet", "id": "P39079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39079" } ], "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": "P39079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39079" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P39079", "url": "https://www.uniprot.org/uniprotkb/P39079", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P39079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39079", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002596", "url": "https://www.yeastgenome.org/locus/S000002596", "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": "KNAYVLILNVSLEYEKTEVN", "down_seq": "GFFYSSADQRDKLAASERKF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P39079", "url": "https://www.uniprot.org/uniprotkb/P39079" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P39079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39079" }, { "database": "SGD", "id": "S000002596", "url": "https://www.yeastgenome.org/locus/S000002596" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser249" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "245", "end_pos": "245" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "544", "end_pos": "544" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P39079-1.245.245", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P39079-1.265.265", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P39079-1.265.265", "start_pos": 265, "end_pos": 265, "uniprot_canonical_ac": "P39079-1", "length": 546, "uniprot_id": "TCPZ_YEAST", "protein_name": "T-complex protein 1 subunit zeta", "refseq_ac": "NP_010474", "refseq_name": "chaperonin-containing T-complex subunit CCT6", "gene_name": "CCT6", "gene_names_uniprotkb": "CCT6; TCP20; TCP6; YD9395.21", "gene_names_refseq": "CCT6; HTR3; TCP20; TCP6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P39079", "url": "https://www.uniprot.org/uniprotkb/P39079" } ], "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": "P39079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39079" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002596", "url": "https://www.yeastgenome.org/locus/S000002596", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P39079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39079", "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": "TEVNSGFFYSSADQRDKLAA", "down_seq": "ERKFVDAKLKKIIDLKNEVC", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002596", "url": "https://www.yeastgenome.org/locus/S000002596" }, { "database": "iPTMnet", "id": "P39079", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P39079" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser265" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "245", "end_pos": "245" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "544", "end_pos": "544" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P39079-1.245.245", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P39079-1.249.249", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] } ]